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Characterization of gene expression patterns in the wild Pacific salmon Morien, Evan 2012

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Characterization of Gene Expression Patterns in the Wild Pacific Salmon by Evan Morien  B.Sc., State University of New York at Buffalo, 2007  A THESIS SUBMITTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF MASTER OF SCIENCE in The Faculty of Graduate Studies (Bioinformatics)  THE UNIVERSITY OF BRITISH COLUMBIA (Vancouver) December 2012 c Evan Morien 2012  Abstract Declines in Pacific salmon stocks in recent decades have spurred much research into their physiology and survivorship, but comparatively little into their genomics. Sockeye salmon in particular are experiencing high levels of mortality during their migration upriver, and the numbers of returning sockeye have fluxuated wildly with respect to predictions in recent years. The goal of my project is to gain insight into the basic genomics of Pacific salmon stocks, including the sockeye, through bioinformatic approaches to gene expression profiling. Using microarray technology, I have conducted a large-scale analysis of over 1,000 samples from multiple tissues, stocks, and species of salmon. I identified tissue-specific and housekeeping genes and compared them to orthologs in mouse and human, respectively. I have also classified a number of microarray samples with a support vector machine (SVM) using qPCR data showing the presence of several common pathogens affecting Pacific salmon populations. Using identified housekeeping genes as normalizing factors, I modeled in silico a qPCR assay designed to identify salmon as infected or uninfected with a particular pathogen. With these data I hope to increase basic knowledge of the genomics of the Pacific salmon.  ii  Preface Contributions The data used in this thesis were generated at the Department of Fisheries and Oceans Pacific Biological Station in Nanaimo, British Columbia by Kristina M. Miller, Ph.D., Molecular Genetics Section Head, and members of her lab. Shaorong Li is responsible for the generation of the qPCR data. Angela D. Schulze and Karia H. Kaukinen are responsible for the generation of the microarray data. Paul Pavlidis, Ph.D., Associate Professor, University of British Columbia, supervised and directed my contributions to the project. I conducted the computational research detailed below, and wrote this thesis.  iii  Table of Contents Abstract  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .  ii  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .  iii  Table of Contents . . . . . . . . . . . . . . . . . . . . . . . . . . . .  iv  Preface  List of Tables  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . viii  List of Figures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . List of Abbreviations  x  . . . . . . . . . . . . . . . . . . . . . . . . . xii  Acknowledgements . . . . . . . . . . . . . . . . . . . . . . . . . . . xiii 1 Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .  1  1.1  Consider the Salmon  1  1.2  FishManOmics - Genomic Tools for Fisheries Management  .  3  1.3  Thesis Overview . . . . . . . . . . . . . . . . . . . . . . . . .  4  1.4  Literature Review . . . . . . . . . . . . . . . . . . . . . . . .  6  1.4.1  Genomics Research on Salmonids  . . . . . . . . . . .  7  1.4.2  Genomics Research on Non-Salmonid Teleost Fish . .  9  iv  1.4.3  Housekeeping and Tissue-Specific Gene Research in Other Organisms  . . . . . . . . . . . . . . . . . . . .  13  1.4.4  Pathogen Types and Host-Pathogen Interactions . . .  15  1.4.5  Supervised Machine Learning  16  1.4.6  Using ROC Curves and AUC Values  2 Methods 2.1  2.2  . . . . . . . . . . . . . . . . . . . . . .  19  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .  21  Biological Methods  . . . . . . . . . . . . . . . . . . . . . . .  21  2.1.1  Introduction . . . . . . . . . . . . . . . . . . . . . . .  21  2.1.2  Data Collection  21  2.1.3  Array Sample Preparation  2.1.4  Arrays  2.1.5  qRT-PCR  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .  22  . . . . . . . . . . . . . . . . . . . . . . . . . .  22  . . . . . . . . . . . . . . . . . . . . . . . .  Computational Methods  23  . . . . . . . . . . . . . . . . . . . .  23  2.2.1  Array Data Preparation . . . . . . . . . . . . . . . . .  23  2.2.2  Identifying Housekeeping Genes  . . . . . . . . . . . .  24  2.2.3  Identifying Tissue-Specific Genes . . . . . . . . . . . .  25  2.2.4  Comparison of TS Genes to Mouse Counterparts . . .  26  2.2.5  qRT-PCR Data Prep  . . . . . . . . . . . . . . . . . .  26  2.2.6  Functional Enrichment Analysis . . . . . . . . . . . .  27  2.2.7  SVM Classification  28  2.2.8  Using Control Probes to Normalize Data  3 Results  . . . . . . . . . . . . . . . . . . . . . . . . . .  28  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .  30  3.1  Housekeeping Gene Identification  . . . . . . . . . . . . . . .  3.2  Comparison of Housekeeping Genes to Human Counterparts  30 30 v  3.3  Tissue Specific/Selective Gene Identification  3.4  Comparison of TS Genes to Murine Counterparts  . . . . . .  33  3.5  Functional Enrichment of TS Genes . . . . . . . . . . . . . .  35  3.6  SVM Classification and Prediction of Pathogen States . . . .  35  3.6.1  31  Functional Enrichment Analysis of Pathogen-specific Probes  . . . . . . . . . . . . . . . . . . . . . . . . . .  44  3.6.2  Differences Between Pathogen Datasets . . . . . . . .  45  3.6.3  Classification of Fish Infected with Parvovirus Alone,  3.6.4 3.7  . . . . . . . . .  or No Pathogens . . . . . . . . . . . . . . . . . . . . .  50  Fish Infected with Multiple Pathogens  . . . . . . . .  51  . . . . . . . . . . .  52  . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .  55  Using Control Probes to Normalize Data  4 Discussion 4.1  What is an appropriate reference gene?  . . . . . . . . . . . .  55  4.2  Comparison of Salmon to Mouse and Human Genes . . . . .  57  4.2.1  Biological Implications of Overlap . . . . . . . . . . .  57  4.2.2  Functional Enrichment of TS Genes . . . . . . . . . .  59  4.3  SVM Classification  . . . . . . . . . . . . . . . . . . . . . . .  4.4  Functional Enrichment of Pathogen-Specific Signals, and InfectionType-Specific Responses  59  . . . . . . . . . . . . . . . . . . . .  61  4.5  Using Control Genes to Normalize Data . . . . . . . . . . . .  62  4.6  Conclusion  . . . . . . . . . . . . . . . . . . . . . . . . . . . .  63  Bibliography . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .  64  vi  Appendices A Reference Gene Candidates  . . . . . . . . . . . . . . . . . . .  77  B Tissue-Specific Probes . . . . . . . . . . . . . . . . . . . . . . . 219 B.1 Brain-Specific Probes B.2 Gill-Specific Probes  . . . . . . . . . . . . . . . . . . . . . . 219 . . . . . . . . . . . . . . . . . . . . . . . 297  B.3 Liver-Specific Probes  . . . . . . . . . . . . . . . . . . . . . . 338  B.4 Muscle-Specific Probes  . . . . . . . . . . . . . . . . . . . . . 400  C Tissue-Specific Functional Enrichment C.1 Brain-Specific Enrichment C.2 Gill-Specific Enrichment  . . . . . . . . . . . . 448  . . . . . . . . . . . . . . . . . . . 448 . . . . . . . . . . . . . . . . . . . . 451  C.3 Liver-Specific Enrichment . . . . . . . . . . . . . . . . . . . . 451 C.4 Muscle-Specific Enrichment . . . . . . . . . . . . . . . . . . . 453 D Pathogen-Specific Functional Enrichment  . . . . . . . . . . 455  D.1 Microsporidia-Specific Enrichment . . . . . . . . . . . . . . . 455 D.2 Gill Chlamydia-Specific Enrichment . . . . . . . . . . . . . . 455 D.3 Parvovirus-Specific Enrichment . . . . . . . . . . . . . . . . . 458  vii  List of Tables 2.1  3.1 3.2  3.3 3.4 3.5 3.6 3.7  3.8 3.9  Tissue and species data sources. Fish were harvested from 2007-2010 in the Fraser River, Straight of Georgia, and surrounding ocean waters. All fish are smolts (juveniles). . . . . Expected and observed overlap between the human housekeeping and salmon housekeeping genes. . . . . . . . . . . . . Expected vs observed overlap between mouse and salmon tissue-specific genes. p-values calculated using the hypergeometric test. . . . . . . . . . . . . . . . . . . . . . . . . . . . . Microsporidia training AUC values using the full dataset of 141 gill samples. . . . . . . . . . . . . . . . . . . . . . . . . . Training and test AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for microsporidia data. . Training and test AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for gill chlamydia data. . Classification performance using gill chlamydia pathogen qPCR data with linear and radial basis kernel functions. . . . . . . . Numbers of significantly differentially expressed probes and genes for fish infected with each pathogen alone and fish infected with all pathogens compared to pathogen-free fish. . . Training AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for parvovirus-only data. . . . . Training AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for classification of microsporidiaonly fish, fish infected with more than one pathogen, fish infected with all three pathogens, and gill chlamydia-only fish. .  24  31  34 36 37 42 42  43 50  52 viii  3.10 Full dataset microsporidia training AUCs from non-normalized (NN) and quantile-normalized (QN) data that has been control corrected (CC) using the ten control probes selected. Alongside are shown the ratios of support vectors to total vectors (SVs/TVs) for each of the four sets of results. . . . .  54  ix  List of Figures 2.1  3.1  3.2 3.3 3.4 3.5  Binarized qPCR data for three pathogens in gill samples. The data has been sorted in ascending order according to the number of positive data points present. Dark boxes indicate the presence of a pathogen, light boxes indicate no pathogen was detected. This was the only pathogen data used. . . . . . . . Heatmap showing tissue specific/selective probes found in each of the four tissues assayed. Expression level increases from orange to white. The 1,086 samples are organized in tissue groups, while probes are sorted by p-value. p-values calculated using t-tests for differential expression between tissues. 3,238 probes are represented, corresponding to 977 genes. Numeric labels show the number of unique genes associated with each group of TS probes. . . . . . . . . . . . . . . . . . . . . The degree of overlap between murine and salmonid TS genes in brain, liver, and muscle. . . . . . . . . . . . . . . . . . . . . Training and test ROC curves from classification of fish using microsporidia labels. . . . . . . . . . . . . . . . . . . . . . . . Training ROC curves from gill chlamydia (top) at 15 features and parvovirus (bottom) at 50 features. . . . . . . . . . . . . Test ROC curves from gill chlamydia (top) at 15 features and parvovirus (bottom) at 50 features. . . . . . . . . . . . . . . .  27  32 34 38 40 41  x  3.6  3.7 3.8  3.9  CT values for fish testing positive for microsporidia, gill chlamydia, and parvovirus. Red points represent individual CT values. Low CT values indicate the presence of more pathogen DNA in the qPCR sample. A CT value of 38 indicates that there was no pathogen DNA present in the sample. . . . . . . Histograms of CT values for microsporidia (top left), gill chlamydia (top right), and parvovirus (bottom). . . . . . . . CT values for fish testing positive for microsporidia, gill chlamydia, and parvovirus. Red points represent individual CT values. Low CT values indicate the presence of more pathogen DNA in the qPCR sample. A CT value of 38 indicates that there was no pathogen DNA present in the sample. True positive fish (n=58, mean CT=28.3) are those which are identified correctly as infected by the classifier, and false negative fish (n=12, mean CT=29.7) are those which are infected but are misclassified as uninfected. Remaining fish are either false positives or true negatives and have scores of 38 (not shown). Heatmap showing the expression of the nine control probes alongside the expression from selected experimental probes. .  46 47  49 53  xi  List of Abbreviations AUC - area under the (ROC) curve cDNA - complementary DNA cGRASP - Consortium for Genomic Research on All Salmonids Project DFO - Department of Fisheries and Oceans FC - fold change q(RT)PCR - quantitative (real-time) polymerase chain reaction ROC - receiver operating characteristic SVM - support vector machine TS - tissue-specific and tissue-selective  xii  Acknowledgements I wish to thank Paul Pavlidis, my supervisor, for his guidance, advice, and patience throughout my time in the lab; Kristina M. Miller, the project head, my co-supervisor, a member of my committee, and without whom we would not have our data; Scott G. Hinch and Jeorg Gsponer, my committee members; Thomas Sierocinski, who was a post-doctoral student working on the project when I joined and to whom I owe great thanks for his advice and guidance; Willie Kwok, Celia Siu, and Artemis Lai, who curated our data; Shaorong Li, who produced the qPCR pathogen data; Angela D. Schulze and Karia H. Kaukinen, who generated the microarray data; Norma Ginther, for her help with the biological methods; Emma Lawson, Leon French, and Ellyce Eddy, for reading my thesis and giving helpful advice; Eloi Mercier, Jesse Gillis, Meeta Mistry, Raymond Lim, Louise Donnison, and Hugh Brown for all of their help while I was learning R and improving my coding skills, looking for feedback on ideas, and their advice while I was working on this project; and the rest of the Pavlidis and Miller labs for all of their help and contributions to the FishManOmics project.  xiii  Chapter 1  Introduction 1.1  Consider the Salmon  Worldwide, salmon species are both ecologically and economically important organisms. Both Atlantic (Salmo salar ) and Pacific salmon (Oncorhynchus spp.) stocks have been fished for centuries, and S. salar is farmed throughout northern Europe and America, but also in places as far from that species’ native range as Australia and Chile (Gross 1998). Pacific salmon are not farmed in large numbers except for coho salmon (Foran et al. 2005, Kocik and Brown 2002, Araneda et al. 2008), but in British Columbia, the wild sockeye run has been historically profitable, with the average run of 8 million fish being worth over $1 billion (Miller et al. 2011). Salmon are a keystone species in the ecosystems they are part of, bringing nutrients from the marine environment back to nutrient-poor freshwater systems and providing food for a varienty of animals including bears, otters, eagles, and gulls (Helfield and Naiman 2006). Pacific salmon and trout are teleost fishes belonging to the genus Oncorhynchus. They form - along with Atlantic salmon, other species of trout, char, graylings, and whitefishes - the family Salmonidae. There are six species of Pacific salmon: sockeye (O. nerka), coho (O. kisutch), pink (O. 1  gorbuscha), chum (O. keta), chinook (O. tshawytschai ), and masu (O. masou). The salmonid genome is pseudo-tetraploid, with an ancestral duplication having occured between 25 and 100 million years ago (reviewed in de Boer et al. 2007), and the re-diploidization of the genome still ongoing (reviewed in Wolfe 2001, Davidson et al. 2010). This duplication makes the structure of their genome distinct from other tetrapods, and indeed from other teleost fish lineages. Salmon are anadromous - they migrate between fresh and salt water during their life cycle, with much of the time being spent in salt water. The details vary between species and individuals, but broadly, salmon hatch in rivers, then live as juveniles in freshwater for 1-2 years before migrating downstream to the ocean where they mature for a further 1-5 years. Once mature, they migrate back upriver to the natal streams where they hatched to spawn (Quinn 2005). Genus Oncorhynchus generally die after spawning, while Salmo spp. can survive for repeated spawnings (Araneda et al. 2008). As adult salmon travel upriver, a variety of stressors may influence their success. River temperature and conditions, the change from salt to freshwater and the physiological change which accompanies it, pathogens, pollutants, and the timing of the migration all have the potential to adversely affect the salmon’s chance of spawning (Cooke et al. 2004, Mathes et al. 2010). In recent decades, numbers of returning sockeye have fluxuated wildly while declining throughout their range in BC (Miller et al. 2011, Cooke et al. 2004) and elsewhere (Kaeriyama et al. 2009). Pre-spawning mortality has also been high during this time, ranging from 40-95% of the returning adults (Cooke et al. 2004). Declines in salmon stocks have not been specific 2  to sockeye, with a recent large-scale survey finding 23% of Oncorhynchus spp. populations to be at moderate or high risk of extinction (Augerot and Foley 2005). These trends are worrying for both commercial and governmental bodies in Canada, and the project my work contributes to was created with the intent of addressing the Canadian goverment’s concern over the situation.  1.2  FishManOmics - Genomic Tools for Fisheries Management  The FishManOmics project is a Department of Fisheries and Oceans (DFO), NSERC, and GenomeBC-funded investigation of the recent declines and increased variability in salmon returns in British Columbia. The goal of the project - of which my own work is a part - is to assess the overall health of salmon stocks using biomarkers, and to inform salmon management through studies of their genomics. In a paper published last year, a mortality-associated biological signature was identified by FishManOmics researchers (Miller et al. 2011). The functional genomics study examined several hundred salmon which were sampled and tagged as they prepared to migrate up the Fraser River to spawn. Custom microarrays were used to probe the gene expression of the fish (Koop et al. 2008). Fish which died before reaching the spawning grounds were found to share a set of biomarkers which suggested they were under some sort of immune stress. Miller et al. hypothesize that the mortality-related signature is the result of a pathogen which is adversely affecting the salmon, possibly 3  from a virus, but stops short of any further biological conclusions. This highlights an important problem when conducting research using a non-model organism: often, very little is known about their genetics and genomics, so interpretations of functional genomics studies like this one must be cautious. Indeed, despite the wealth of research on many species of salmon, we know very little about their genomics. I propose that a large-scale analysis of the Pacific salmon transcriptome could 1) provide insight into salmon genomics, an area which is currently understudied 2) give invaluable information to those who wish to study the genomics of the salmon, and 3) add to the knowledge base which currently informs fish management in British Columbia.  1.3  Thesis Overview  The need for basic information about broad-scale variation in the salmon genome and the dearth of knowledge of Pacific salmon genomics is what motivates the work in the first part of this thesis. With a wide variety of microarray data at my disposal, I wanted to ask questions that would increase and supplement our knowledge of salmon genomics and genetics. I began by asking some basic questions which had not been addressed yet with respect to salmon, namely: 1) What genes are tissue-specific (TS)?, 2) What genes are least variable in their expression patterns?, and further, 3) How conserved are these genes in their expression patterns when compared to other more well-understood organisms? These questions are motivated, as mentioned previously, by a critical  4  lack of knowledge. But rather more importantly they are movtivated by the potential benefits of the answers they will yield. The most obvious benefit from knowing more about salmon genomics is to researchers who wish to interpret the results of functional genomics studies on salmon and their close relatives. Additionally, both commercial and governmental interests will be able to benefit from newly-discovered information about salmon, and methods of fish management may be improved as a result. For example, in British Columbia, none of the models used to forecast the numbers of returning salmon include information on salmon health or condition, and few of them use any environmental variables. Perhaps because of this, the forecasts are generally “highly uncertain” (DFO Fraser River Sockeye Forecasts 2012). The use of biomarkers to assess salmon health could help directly to improve forecasting of salmon runs, and in turn inform limits imposed on salmon catches for commercial and sport fishing (DFO Integrated Fisheries Management Plan 2012). Experiments that could be used to assess population health, such as qPCR, require controls as well. It is no doubt better to identify these controls directly using data from salmon, rather than to rely on homology data. To assess the conservation of TS and housekeeping genes in salmon we compared them to counterparts in mouse (Su et al. 2004) and human (Eisenberg and Levanon 2003, Chang et al. 2011). This comparison was in part motivated by the annotations of the custom microarray used to produce our data. Because the salmon genome has not been sequenced, and the lack of knowledge regarding the genetics of Pacific salmon, the annotations on the array were created almost entirely from homology to other organisms. Com5  paring TS and housekeeping genes with counterparts in more well annotated organisms not only demonstrates the validity of our methods, it gives us a measure of the accuracy of our annotations. The work in this thesis is also motivated by the desire to identify pathogen or infection-specific biomarkers. Using data available to me, I sought biomarkers which could identify salmon as infected or uninfected with several common pathogens already detected in many of the fish assayed in the microarray experiment. I hypothesize that there are pathogen-specific biomarkers which may themselves serve as indicators of overall fish health. These could be assayed in tandem with other biomarkers as part of a test of overall population health in returning salmon each year. I first identified pathogenspecific biomarkers, then modeled a qPCR assay in silico, classifying samples using these biomarkers while employing previously identified housekeeping genes as controls.  1.4  Literature Review  In the past, research on Salmonids and other fish has been crucial to the field of evolutionary biology, and to the development of commercial aquaculture. In the last decade, much preliminary work has been done on the genetics and genomics of the salmon and other closely related species (reviewed in Araneda et al. 2008). In the following sections I summarzie current research and resources in the field of Salmonid genomics, as well as similar research being conducted on other species of fish. My goal here is not a comprehensive review of fish genomics, but a summary which highlights major  6  accomplishments with respect to Salmonids, and relevant feats for other teleost lineages. Additionally, I discuss established techniques for the discovery of tissuespecific and housekeeping genes using microarray technology by highlighting some landmark studies done using more well-researched organims such as mouse and human, as well as any relevant studies done using teleost fish. Finally, I discuss relevant literature on the use of Support Vector Machines (SVMs) to classify microarray samples, and the use of receiver operating characteristic (ROC) curves to evaluate the performance of SVM classification.  1.4.1  Genomics Research on Salmonids  Salmonids - rainbow trout (O. mykiss) in particular - are some of the beststudied fish in terms of their ecology, biochemistry, and physiology, but comparatively little research has been done on their genomics (Thorgaard et al. 2002), especially with respect to Pacific salmon. Sequencing of the Atlantic salmon genome began in 2010 (Davidson et al. 2010), but no draft sequence has been published at the time of writing. There are some existing genomics resources for Atlantic salmon (reviewed in Quinn et al. 2008), but no such resources are available for Pacific salmon species. Large-scale genomics projects focused on Salmonids have been initiated by groups in Canada, Norway, France, and the United States. As a result, there exist several low-resolution genetic maps for salmonid species: O. mykiss (Guyomard et al. 2006, Rexroad et al. 2008, Palti et al. 2011), S. salar (Moen et al. 2004, Ng et al. 2005, Moen et al. 2008), and for 7  related species Arctic charr (Salvelinus alpinus), lake whitefish (Coregonus clupeaformis), and brown trout (Salmo trutta) (reviewed in Araneda et al. 2008). One preliminary linkage map exists for pink salmon (O. gorbuscha), but it has not yet been published as a genetic map (Araneda et al. 2008). There has also been extensive work on quantitative trait loci mapping in salmonids, O. mykiss in particular (reviewed in Araneda et al. 2008). There are published EST and BAC libraries for S. salar (Martin et al. 2002, Rise et al. 2004, Thorsen et al. 2005, Adzhubei et al. 2007, Koop et al. 2008), and O. mykiss (Rexroad et al. 2003, Govoroun et al. 2006). These libraries, with the exception of one created from liver alone (Martin et al 2002) and one created from spermatazoa (Thorsen et al. 2005) were created from multiple tissues of either adult or juvenile salmon or trout. The EST libraries have facilitated the development of several salmonspecific microarray platforms (Rise et al. 2004, von Schalburg et al. 2005, Koop et al. 2008, von Schalburg et al. 2008, Taggart et al. 2008) which have been used in large-scale aquaculture and Salmonid functional genomics studies (reviewed in Rise et al. 2007, Krasnov et al. 2010). Additionally, an online bioinformatics resource for Atlantic salmon and rainbow trout, SalmonDB, was launched last year (Di Genova et al. 2011). Many of the currently available Salmonid microarray platforms use EST libraries from multiple species. In fact the array used to produce my data is one of these, with probes derived from 500K S. salar and 250K O. mykiss ESTs (Koop et al. 2008, cGRASP microarray page). Homologous transcripts have been demonstrated to hybridize between salmonid species, but how precise these cross-species hybridizations are, and to what degree this 8  may affect quantitative measures of expression with microarray technology is unclear (von Schalburg et al. 2008). The recent genome duplication in the Salmonid line also presents problems, as different gene duplicates may be active in different species. Sequence differences between duplicates would in turn affect quantitative measures of expression. At the time of writing, no array designs are available specifically for the six Pacific salmon species. Studies using microarray technology to identify differentially expressed genes in Salmonids are few, and much of the work has been done with cDNA arrays of 16,000 probes or fewer (Bobe et al. 2006, Salem et al. 2006, MacKenzie et al. 2006, reviewed in Krasnov et al. 2010). More recently, larger oligonucleotide Salmon arrays have become available (Jantzen et al. 2011, cGRASP microarray page). These oligonucleotide arrays have several advantages over cDNA arrays, such as greater hybridization efficiency and consistency, and more consistent spots (reviewed in Barrett and Kawasaki 2003). The data used in this thesis was produced using the cGRASP 44K Salmonid Oligo Array.  1.4.2  Genomics Research on Non-Salmonid Teleost Fish  Eight fish species have had their genomes sequenced1 , but all belong to lineages which diverged from salmonids at least 200 million years ago (Steinke et al. 2006), and therefore do not share the same recent genome duplication of salmonids. 1  Takifugu rubripes (tiger pufferfish), Tetraodon nigriviridis (green spotted pufferfish), Danio rerio (zebrafish), Oryzias latipes (medaka), Gadus morhua (Atlantic cod), Gasterosteus aculeatus (three-spined stickleback), Latimeria chalumnae (West Indian Ocean coelacanth), and Oreochromis niloticus (Nile tilapia) have full draft sequences available at Ensembl (accessed July 2012).  9  A variety of published studies have examined the transcriptomes of teleost fish (reviewed extensively in Douglas 2006, Miller and Maclean 2008, and Hook 2010). The bulk of this work examines fish under different states of stress (e.g. abnormal environmental conditions or toxins), or in various stages of development. Sample sizes and arrays are often quite small. I aim here not to give an exhaustive review, but to summarize work relevant to this thesis. In the following paragraphs I discuss recent bioinformatic analyses of teleost fish transcriptomes, focusing on studies which examine either housekeeping or tissue-specific genes using microarray technology, and those which are larger in scale.  Studies of Housekeeping Genes in Teleost Fish Housekeeping genes are so-called because when discovered, they were found to be expressed in every tissue or cell-type examined, and were judged as being necessary in some way for cellular survival. These genes (for example, beta-actin) were used as controls in laboratory experiments such as PCR. The qualitatitve nature of these experiments meant that the variability that some of these genes exhibited was not a concern. As newer, more quantitative molecular assays such as qPCR were developed, it became clear that many housekeeping genes were no longer suitable as controls (Tricario et al. 2002, Rubie et al. 2005). As with experiments of a qualitative nature, quantitative assays require controls that are always expressed, but also as invariant in their expression as possible across the tissues and experimental conditions being assayed. This is true for any organism. qPCR assays need controls that fit these criteria because due to the 10  nature of the experiment, in which the starting material is amplified multiple times. This amplification makes individual assays sensitive to the amount of starting material present as well as its condition, and any differences in sample prep due to human error (reviewed in Radonic et al. 2004, Fedrigo et al. 2010). Reference genes will have been through the same preparatory steps, and have experienced the same level of degradation as experimental targets in each sample, and serve as a normalizing factor which will allow direct comparison of samples. Indeed, a recent qPCR study of zebrafish (D. rerio) found that some housekeeping genes commonly used as controls were not suitably invariant (McCurley and Callard 2008). The authors highlight the importance of validating control genes on a variety of experimental conditions. This study was small in scale, with only 8 genes surveyed. While examining the existing literature, I have been unable to find any genome or transcriptome-wide analyses of housekeeping or control genes in any species of teleost fish. The study I have conducted appears to be the first of its kind.  Studies of Tissue-Specific Genes in Teleost Fish A 2005 study of killifish (Fundulus heteroclitus) on the Atlantic coast sought to uncover population and tissue-specific differences in gene expression between three geographically distant populations (Whitehead and Crawford 2005). The authors used a small custom microarray, with only 192 metabolismrelated genes assayed, but found significant differential expression between and among tissues. A microarray study of turbot (Scophthalmus maximus) found a variety of differentially expressed genes in several tissues after ex11  posing fry to a bacterial pathogen (Milln et al. 2006). Other larger-scale studies found differential expression of genes within or between tissues due to environmental conditions (Gracey et al. 2004), domestication (Tymchuk et al. 2009), or age and sex-specific differences (Guiry et al. 2010, Seear et al. 2010, Hale et al. 2011). These studies were mainly motivated by the desire to discover differential expression within tissues and between lifestages or conditions. Only the Whitehead and Crawford paper examined tissue-specific differences in adult fish alone. Comparisons to well-studied organisms have shown that homologous gene expression in fish shows similarities to but is distinct from expression levels in mammals (Gracey et al. 2001, Knoll-Gellida et al. 2006). Gracey and co-authors found that hypoxia-induced gene expression changes in longjaw mudsuckers (Gillichthys mirabilis) did not reflect hypoxia-related expression changes observed in mammals. Knoll-Gellida et al. highlighted similarities and differences in oocyte gene expression between zebrafish and seven other vertebrates, including human, dog, and salmon. The identified differences illustrate the utility of examining teleost genomes as if no prior knowledge of gene function was available. There remains a need for studies of larger scale in teleost fish. In all the studies I found, none had more than 200 samples, and few were focused on simply characterizing the transcriptome or genome of the organisms being studied.  12  1.4.3  Housekeeping and Tissue-Specific Gene Research in Other Organisms  The lack of studies evaluating housekeeping genes in teleost fish gives us cause to search the literature for the treatment of this subject in more wellresearched organisms, such as mouse and human. In this section I give a brief overview of established standards for finding housekeeping and tissuespecific genes using microarray technology.  Identifying Reference Genes Traditional reference genes were referred to as housekeeping genes, and were so-called because they are essential for cellular function (reviewed in Tricario et al. 2002), and were valued as controls for qualitative experiments such as PCR because their expression was observed in every cell. I am also interested in identifying genes for use as controls for our experiments, but the definition for what an appropriate control gene is differs due to the quantitative nature of our assays. Genes such as beta-actin and GAPDH, traditionally valued as reference genes, have recently been found to be unsuitable for use as controls due to their levels of variability under certain conditions (Tricario et al. 2002, Rubie et al. 2005, Fedrigo, et al. 2010). Because we are interested in reference genes as quantitative and not qualitative controls, we would like their expression to vary as little as possible across a variety of environmental conditions, developmental stages, tissues, etc. We also desire controls that are expressed at a level which is comparable to the genes we may be interested in assaying at a later point. Therefore, our  13  ideal control gene is one which is expressed ubiquitously, has an expression level which falls within mid-high levels of expression, and has low variance. Previous studies using microarray technology to discover reference genes have typically used a measure of consistency of expression level across samples (de Jonge et al. 2007, Shulzhenko et al. 2005, Narsai et al. 2010, Fedrigo et al. 2010), as well as filtering out genes which show expression levels that are too low or high (Lee et al. 2006, Popovici et al. 2009, She et al. 2009, Cheng et al. 2011, Chang et al. 2011).  Identifying Tissue-Specific Genes Tissue-specific and tissue-selective genes are defined as being differentially expressed between tissues. These genes may be expressed in all tissues, but at a much higher level of expression in a single tissue (tissue-selective), or they may be expressed only in a single tissue (tissue-specific). Expression patterns of genes which are tissue-specific or selective suggest that they play a role in tissue-specific functions, and can open the door to more detailed functional analysis and characterization (Dezoso et al. 2008, Liang et al. 2006). The transcriptomes of a variety of tissues have been well-characterized by large-scale studies in mouse and human (Hsiao et al. 2001, Saito-Hisaminato et al. 2002, Su et al. 2004, Greco et al. 2008, She et al. 2009, Chang et al. 2011). Typically, TS genes are found by their differential expression between the tissue(s) of interest and other tissues (Hsiao et al. 2001, Liang et al. 2006, Greco et al. 2008, Wang et al. 2010, Chang et al. 2011), by the degree of that differential expression (or fold change) (Saito-Hisaminato et 14  al. 2002), or by some combination of the two (She et al. 2009).  1.4.4  Pathogen Types and Host-Pathogen Interactions  One of the major goals of the FishManOmics project is to determine if Pacific salmon are being adversely affected by any pathogens. Quantitative PCR data is available along with microarray data for a number of fish, and with this data I attempt to identify gene expression patterns which are indicative of infection by one of three pathogens using supervised machine learning techniques. Details on this experiment and the specific pathogens can be found in the methods. Here I present a brief review of several studies examining the effects of the relevant pathogens in salmonids, as well as the differences and similarities in infection response between the three pathogen types. Different pathogen types are proven to provoke different responses from their hosts (reviewed in Medzhitov 2007). However, an analysis of 785 transcriptional profiles from 32 independent studies of infection of a variety of pathogen types, including bacteria, viruses, and fungi revealed a core set of transcriptional changes which were common to all infections (Jenner and Young 2005). Two of the three pathogens surveyed by our collaborators have been previously identified in salmonids. First, Paranucleospora theridion, a microsporidian, was identified and characterized by Nylund et al. in 2010. A gill chlamydia is a new species identified by Duesund et al. in 2010, but its relationship with fish mortality has not been investigated. Finally, a parvovirus strain was identified by our collaborators at the DFO Pacific Bi15  ological Research Station in Nanaimo. Its pathogenicity in salmon has not yet been investigated. The salmon’s response to P. theridion infection is the best-studied of the three. In Atlantic salmon where P. theridion was found, Nylund and co-authors observed inflammation of the gills, kidney, heart, spleen, gut, and pancreas, as well as loss of scales, and pale gill color and excess mucous production compared to uninfected fish. The microsporidian develops in the cytoplasm of its host’s cells, has three distinct life stages, and infects both S. salar and the sea lice which live on it. Infection of the gills by chlamydia and chlamydia-like organisms has been reported previously in Pacific salmon, but the authors report that the symptoms were usually minor (Kent et al. 1998). Based on this, and the inability to accurately classify our fish using gill chlamydia data, I hypothesize that the observed infections are not severe enough to illicit a strong transcriptional response. Response to viral infection has been characterized in Atlantic salmon (Krasnov et al. 2011). 117 genes which are involved in early response to viral pathogens were identified by the group using microarray analysis. These genes were associated with a variety of functions, including immune response and more specialized antiviral response, as well as many non-immune functions.  1.4.5  Supervised Machine Learning  The goal of any supervised machine learning experiment is to predict the outcome or class of a test sample or samples based on a set of training exam16  ples. The method finds features that identify the classes being distinguished using the training data, and attempts to apply what it has learned to the test data (Hastie et al. 2003).  Support Vector Machines A support vector machine (SVM) is a machine learning algorithm which classifies objects based on an optimal boundary - or margin - drawn between two classes or groups present in the data. This is accomplished by plotting the data in n-dimensional space, where n is the number of features being used to classify each sample (Boser et al. 1992). Support vectors are those data points which lie closest to the decision boundary. Due to their positions, they determine the width of the margin between the boundary and the classes being separated. SVMs use the support vectors to optimize the boundary between classes of objects (Boser et al. 1992). Algorithms that use a ’soft margin’ to penalize solutions that allow some examples to be mislabeled can also be used if no boundary can be drawn that fully separates the classes (Cortes and Vapnik 1995). SVMs have been used to successfully classify everything from handwriting (Boser et al. 1992) to microarray samples (Mukherjee et al. 1999, Furey et al. 2000) and genes (Brown et al. 2000).  Alternative Methods With respect to the classification of microarray data, SVMs have been demonstrated to outperform a variety of other methods of classification (Brown et al. 2000). However, similarly sophisticated methods such as ar17  tificial neural networks or Bayesian networks are just as flexible and robust as SVMs, and will behave comparably under similar conditions (Byvatov et al. 2003, Jayasurya et al. 2010). In our lab’s experience, the input data and feature selection are more important considerations than the method of classification.  Feature Selection The selection of features is crucial to the accurate classification of data with any machine learning method. Features (or in the case of microarray data, probes) are numerous and irrelevant or redundant with respect to the learning process. Removing useless features will improve the performance of the classifier, and purposefully adding them to selected features will decrease performance (Witten and Frank 1999). A simple method of feature selection referred to as the filter method involves selecting features before learning commences (Witten and Frank 1999). In the case of microarray data, for example, this might involve performing a statistical test to determine which probes best identify the two groups of data one wishes the classifier to learn. The researcher might use a threshold of a whole number of features, or a statistically-driven significance threshold. In the former case, a ’trial and error’ method might be used to determine the optimal number of features with which to train the classifier by evaluating training performance at different thresholds. This might be useful if a statistical test showed no significant differences between the two groups being classified.  18  Overfitting Overfitting occurs when a learning algorthm is overtrained, and its model of the data becomes overly complex. This results in it performing badly when classifying new data despite having a low error rate when classifying training data. It is too well-fit to the training data to be able to accurately classify any new data presented to it, hence the term overfitting (Hastie et al. 2003). For example, when classifying microarray samples, if the classifier is using features which respond on noise unique to the training dataset, it will not perform well when classifying test data. Overfitting can be avoided by finding a happy medium between model complexity and performance of test classification (Hastie et al. 2003).  1.4.6  Using ROC Curves and AUC Values  Receiver operating characteristic (ROC) curves are useful for the evaluation of the performance of a single or multiple classification algorithms, and have been employed for this purpose for over two decades (reviewed in Fawcett 2006). More recently, ROC curves have been found useful in the evaulation of SVMs for the classification of microarray samples (Pochet et al. 2004, Zhang et al. 2006, Mamitsuka 2006), as well as for other biological classification problems (Ward et al. 2004, Ben-Hur and Noble 2005, Gillis and Pavlidis 2011). Area under an ROC curve (AUC) represents the classifier’s expected performance, or the chance that the “classifier will rank a randomly chosen positive instance higher than a randomly chosen negative instance” (Fawcett  19  2006). Thus AUCs allow for comparison between classification results by collapsing the performance of the classifier to a single value.  Alternative Methods of Evaluation Ideal performance of an algorithm is represented by having no false positives (maximum precision), and having no false negatives (maximum recall). There are other methods for graphically assessing the performance of an SVM such as precision-recall curves. ROC curves and precision-recall curves evaluate the tradeoff between false positives and false negatives in similar ways. These methods of graphical evaluation plot measures of the rate of precision and the rate of recall against each other (Witten and Frank 1999). The F-measure is an alternative method of measuring classification performance to AUC which also uses the rate of precision and the rate of recall to derive a one-dimensional measure of the performance of a classifier (Yang and Liu 1999).  20  Chapter 2  Methods 2.1 2.1.1  Biological Methods Introduction  All biological experimentation was performed by our collaborator Kristina M. Miller, Ph.D., Molecular Genetics Section Head, and her team at the Department of Fisheries and Oceans Pacific Biological Station in Nanaimo, BC. All fish were caught and sampled under the supervision of the DFO’s Environmental Watch program head, David Patterson.  2.1.2  Data Collection  Fish were sampled while migrating from natal freshwater rearing areas in the Fraser river system to points in the ocean along their migration route from the southern Straight of Georgia to south east Alaska. After collection, fish were euthenized in buckets of water containing TMS/MS-222 immediately prior to sampling. Samples of gill, liver, muscle, and whole brain tissue were taken from coho and sockeye salmon smolts from 2007-2010.  21  2.1.3  Array Sample Preparation  Samples were stored in the same manner as in Miller et al. 2011. Briefly, samples were stored in RNAlater and refrigerated, or placed in liquid nitrogen on collection, then transferred to -80 C in the lab. Sample RNA was amplified using Amino Allyl MessageAmp II-96 kits from Ambion according to the manufacturer’s specifications. RNA was labelled using Alexa 555 and Alexa 647 dyes in place of Cy3 and Cy5, respectively. Labelled RNA was quantified and hybridized according to Agilent protocols. The reference control for each sample consisted of a pooled sample combining all samples its parent dataset. Hybridized arrays were washed and dried according to Agilent protocols.  2.1.4  Arrays  cGRASP 44k Salmonid Oligo two color arrays were used. The arrays are manufactured by Agilent, and are based on Atlantic salmon (S. salar) and rainbow trout (O. mykiss) ESTs (cGRASP microarray website). The arrays have 43,689 probes, of which 24,779 are annotated. These correspond to 11,156 unique genes. Slides were scanned using the Tecan LS Reloaded scanner (TecanTrading AG, Switzerland). Array-Pro Analyzer software was used according to the manufacturer’s instructions. Images were then quantified using Imagene (BioDiscovery, El Segundo, CA, www.biodiscovery.com)  22  2.1.5  qRT-PCR  Fluidigm Real-Time PCR TaqMan Assays were performed to collect information on a variety of potentially harmful pathogens in salmon. Pathogens tested for included parvovirus, gill chlamydia, and microsporidia. cDNA was synthesized from total RNA. Fluidigm Gene Expression Specific Target Amplification (STA) was performed. Unincorporated primers were removed according to Fluidigm protocols. Assays were performed using 150uL 96.96 Dynamic Array IFCs using manufacturer-specified protocols.  2.2 2.2.1  Computational Methods Array Data Preparation  Raw Imagene intensity values and array metadata were stored in BioArray Software environment (BASE). BASE is a web database application used to store microarray data (Vallon-Christersson et al. 2009). Quality control and removal of low-quality samples before analysis was performed as in Miller et al. 2011. It has been shown that intensity-based analyses of two-color arrays allow for direct comparison of all hybridized samples, and are more reproducible than traditional ratio-based analyses (‘t Hoen et al. 2004, Bossers et al. 2010). Indeed, another recent publication found that Agilent intensity data was more reproducible than Agilent ratio data (Patterson et al. 2006). Because of this, we conducted our analyses using only the experimental channel of the two-color Agilent 44k cGRASP arrays.  23  Microarray samples of brain, gill, liver, and muscle tissue were used. Roughly equal numbers of each tissue were used (Table 2.1) for a total of 1,086 samples. Species Sockeye Coho Total  Brain 39 236 275  Gill 178 83 261  Liver 51 229 280  Muscle 51 219 270  All 319 767 1086  Table 2.1: Tissue and species data sources. Fish were harvested from 20072010 in the Fraser River, Straight of Georgia, and surrounding ocean waters. All fish are smolts (juveniles).  2.2.2  Identifying Housekeeping Genes  Our method is based on criteria for identifying housekeeping genes in several recent studies (Eisenberg and Levanon 2003, de Jonge et al. 2007, She et al. 2009, Cheng et al. 2011). Namely, finding genes which are expressed at higher than average levels across all tissues surveyed, filtering for genes expressed at detectable levels in the majority of samples in each tissue, and then ranking identified genes by a measure of variance. Using experimental channel data which was quantile normalized in BASE, we sought to identify salmon housekeeping genes. First, probes that are ‘Always Expressed’ (AE) were selected by ranking probes by their 80th quantile value of expression in each tissue. We arbitrarily chose to sample the 80th quantile value of expression for each probe in order to avoid selecting probes based on outlier values. Selecting, for instance, the 100th or even 95th quantile value of each probe’s expression would have left the selection and subsequent ranking open to the influece of expression levels in outlier 24  samples. Probe ranks were summed across tissues to produce a list of probes ranked by some of their lowest expression values. We arbitrarily selected the top 2,000 ranked probes from this list as candidates, reasoning that these probes had above average 80th quantile expression values, and thus were more well-expressed than the average probe. This list was then filtered for probes for which expression values were present in at least 50% of the samples from each tissue. This resulted in a list of 1,990 probes corresponding to salmon housekeeping genes. These 1,990 probes were ranked by their coefficients of variation (standard deviation divided by the mean) to arrive at a ranked list of least variable probes corresponding to housekeeping genes in salmon.  2.2.3  Identifying Tissue-Specific Genes  Using raw Imagene experimental channel intensity values collected from BASE and quantile normalized (Bolstad 2001) using R, we sought to identify tissue-specific (TS) genes in salmon. Student’s t-tests were performed for each tissue (brain, gill, liver, muscle) against the remaining tissues. False discovery rate was controlled for using the Benjamini-Hochberg procedure (Benjamini and Hochberg, 1995). Corrected p-values (q-values) were used to define significant differential expression between tissues. Fold change (FC) was calculated in the same manner, with each tissue standing against the rest. TS genes were defined as those which showed a q ≤ 0.01 and a log2FC ≥ 3.  25  2.2.4  Comparison of TS Genes to Mouse Counterparts  Brain, liver, and muscle-specific genes in mice were identified with the same methods as above using the murine dataset of Su et al. 2004. Sixty one mouse tissues are represented in this experiment, with two samples for each tissue. Ten brain regions are represented individually, as well as tissue from the peripheral nervous system. We pooled samples from the brain into a single category. Liver and skeletal muscle samples were used to identify liver and muscle-specific genes. Su et al. used the GNF1M array platform, which has 31K probes corresponding to 18K unique genes. Once identified, genes specific to each tissue and represented on both the mouse and salmon arrays were then compared and overlap was noted.  2.2.5  qRT-PCR Data Prep  qRT-PCR pathogen data was available for 152 sockeye salmon gill samples which were also represented on the 44k microarray. Quality control procedures ensured no data from pathogens showing signal in negative controls were used, and samples which had more than one data point were ignored if the readings were not in agreement (i.e. one replicate showing a pathogen signal and the other not). This left 143 samples with accompanying pathogen data (Figure 2.1). We used data from previously-identified pathogens present in a large fraction of our samples. These were a microsporidian (a fungal infection which most severly affects the gills), a gill chlamydia (a bacterial infection),  26  and a parvovirus2 . It should be noted that although I refer to the parvovirus as a pathogen, its pathogenicity has not been formally established, only its presence in Pacific salmon. I will continue to refer to the two microbes and one virus as pathogens, however, for ease of reading. Pathogen information was binarized before use, with cycle threshold values above a cutoff (a CT value of 38) represented by ’0’, and values below that cutoff by ’1’.  Figure 2.1: Binarized qPCR data for three pathogens in gill samples. The data has been sorted in ascending order according to the number of positive data points present. Dark boxes indicate the presence of a pathogen, light boxes indicate no pathogen was detected. This was the only pathogen data used.  2.2.6  Functional Enrichment Analysis  GO term enrichment analysis was conducted using ErmineJ 3.0, a software package and web application for the analysis of gene sets (Lee et al. 2005, Gillis et al. 2010). When calculating significantly enriched GO groups, false discovery rate was estimated using the Benjamini-Hochberg proce2 Taxonomic information for the pathogens is as follows: microsporida: Paranucleospora theridion (Nylund et al. 2010), gill chlamydia: a new species identified by Duesund et al. in 2010, parvovirus: an unclassified Pacific salmon parvovirus of the family Parvoviridae, isolated by our collaborators at the DFO.  27  dure(Benjamini and Hochberg, 1995). Documentation for ErmineJ can be found online at http://www.chibi.ubc.ca/ermineJ/  2.2.7  SVM Classification  Microarray samples were classified using data from parvovirus, microsporidia, and gill chlamydia pathogens using Gist 2.3 (Pavlidis et al. 2004), a Support Vector Machine-learning algorithm implementation. Documentation for Gist can be found online: http://www.chibi.ubc.ca/gist/ Hold-one-out cross-validation was employed, and features were selected using Student’s t-test, ranked by p-value, and selected with a hard threshold. We classified data using both a linear and a radial basis kernel. Microarray samples were split randomly into a training and a test set of equal size. ROC curves were used to evaluate SVM classification results, and were plotted and quantified using the ROCR package in R (Sing et al. 2005). I used the ratio of support vectors to total vectors as a diagnostic for how fit the SVM was to the data. Support vectors are used to draw a boundary between two classes of data plotted in high-dimensional space; in this case, between fish which tested positive for a pathogen versus those that did not. The measure of the number or fraction of support vectors serves and indication of how likely a new sample is to be a support vector, and thus to influence how the boundary is drawn between the two classes.  2.2.8  Using Control Probes to Normalize Data  Top-ranked probes with respect to coefficient of variation across tissues were selected based on their correlations with each other in gill samples not used 28  in the classification experiment. A total of ten probes were selected as normalizing factors or control probes (Figure 3.9). Performance was evaluated on four permutations of the gill data: raw imagene expression values, quantile normalized expression values, and both of these divided by mean control probe expression per sample.  29  Chapter 3  Results 3.1  Housekeeping Gene Identification  I first defined probes as always expressed (AE). Using 1,086 samples from four tissues, I sought probes which fit the criteria defined in the methdods section. From 1,990 identified AE probes, which corresponded to 620 genes, a list of preferred ‘control probes’ was arrived at by ranking these 1,990 probes by their coefficient of variation across tissues (Appendix A).  3.2  Comparison of Housekeeping Genes to Human Counterparts  This list of 620 genes was compared to a list of known human housekeeping genes. The list was derived from two well-correlated large-scale multi-tissue microarary studies (Eisenberg and Levanon 2003, Chang et al. 2011); all of the genes in the former list were represented in the latter. A total of 2,008 unique genes existed between the two lists, and 1,512 of them were represented on the salmon array. An overlap of 324 genes was observed between the represented human and salmon lists (Table 3.1).  30  Table 3.1 Genes  Human 1512  Salmon 620  Observed 324  Expected 27.9  Table 3.1: Expected and observed overlap between the human housekeeping and salmon housekeeping genes.  3.3  Tissue Specific/Selective Gene Identification  Using 1,086 samples from four tissues, we identified 1,192, 625, 758, and 663 brain, gill, liver, and muscle-specific probes, respectively (Figure 3.2). These corresponded to 349, 193, 255, and 180 unique annotated genes. Appendix B shows identified TS probes along with their annotations.  31  Figure 3.1: Heatmap showing tissue specific/selective probes found in each of the four tissues assayed. Expression level increases from orange to white. The 1,086 samples are organized in tissue groups, while probes are sorted by p-value. p-values calculated using t-tests for differential expression between tissues. 3,238 probes are represented, corresponding to 977 genes. Numeric labels show the number of unique genes associated with each group of TS 32 probes.  3.4  Comparison of TS Genes to Murine Counterparts  Comparing tissue-specific genes identified using the same method in two different species, we found significant overlap in each of the tissues we examined (brain, liver, and muscle). Results of the comparison are detailed in Table 3.2 and Figure 3.2. The tissue showing the least significant overlap between species was brain, while the most significant overlap belonged to liver. Results indicate that many of the probes we have identified as tissue-specific in salmon share that function in mouse.  33  Figure 3.2: The degree of overlap between murine and salmonid TS genes in brain, liver, and muscle.  Tissue Brain Liver Muscle  Mouse 231 239 151  Salmon 291 216 142  Observed Expected 62 27.9 89 21.5 53 8.93  p-value 7.96e-11 7.55e-39 9.71e-31  Table 3.2: Expected vs observed overlap between mouse and salmon tissuespecific genes. p-values calculated using the hypergeometric test.  34  3.5  Functional Enrichment of TS Genes  I used ErmineJ to evaluate the functional enrichment of identified tissuespecific and selective genes. GO groups were considered significantly enriched with a corrected p-value of ≤ 0.01. In salmon brain, seven of the ten enriched GO groups are associated with ubiquitin, ubiquitination, or processes involving ubiquitin. Gill-specific genes were enriched for a single GO term; regulation of wound healing. Liver-specific genes were enriched for a total of eighteen GO categories which were associated with a variety of metabolic, catabolic, and biosynthetic processes. Eleven GO categories were enriched in muscle-specific genes; nine of them were associated with metabolica or catabolic processes, and the remaining two were NADPH regeneration and translational initiation. Details for significantly enriched GO groups, including p-values and numbers of associated genes and probes are available in appendix C.  3.6  SVM Classification and Prediction of Pathogen States  Starting with the pathogen qPCR data (Figure 2.1) from microsporidia, gill chlamydia, and parvovirus, I set out to classify fish as either infected or uninfected using microarray probes as features. Using microsporidia pathogen labels gave the best performance in an initial experiment which did not account for multiple infections in the fish. A subsequent experiment in which only fish that were either completely pathogen free, or only infected with a  35  single pathogen were classified showed that parvovirus pathogen labels could also be used to reliably classify fish, but not microsporidia or gill chlamydia labels. For the initial experiment, using the microsporidia pathogen labels, I conducted an experimental test run to determine whether the microarray data were accurately classifiable with Gist. Using leave-one-out crossvalidation, I classified every sample (n=141) at feature thresholds of 2, 3, 5, 10, 15, 25, and 50. As shown in Table 3.3, the majority of samples were classified correctly, with improvements in performance up to 25 features. Features Training AUC  2 0.84  3 0.85  5 0.85  10 0.88  15 0.90  25 0.91  50 0.88  Table 3.3: Microsporidia training AUC values using the full dataset of 141 gill samples.  Next, I sampled the 141 samples at random to creat a training and test dataset, making sure of roughly equal numbers of microsporidia-positive fish in each set. I conducted training and test classification experiments with Gist using the same numbers of features as above. Training AUCs showed similar performance at 5 features and above, while test AUCs improved at each step up to 15 features (Table 3.4). Using either 10 or 15 features produced the most favorable results, with 10 features yielding lower AUCs in both test and training data, but fewer support vectors compared to 15 features. ROC plots for training and test data are show in Figure 3.3.  36  Features SVs/TVs Training AUCs Test AUCs  2 0.74 0.83  3 0.86 0.85  5 0.86 0.92  10 0.81 0.91  15 0.86 0.94  25 1.0 0.92  50 1.0 0.88  0.48  0.58  0.71  0.78  0.85  0.90  0.90  Table 3.4: Training and test AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for microsporidia data.  37  Figure 3.3: Training and test ROC curves from classification of fish using microsporidia labels. 38  Gill chlamydia and parvovirus labels were also tested in this manner. I observed lower AUC values and higher percentages of support vectors when classifying fish with these two pathogens (Figures 3.4, 3.5). From the resultant training and test ROCs, I concluded that it was not possible to accurately classify fish as infected/uninfected using parvovirus labels in this way. Despite the fact that there are approximately the same number of data points for gill chlamydia (n=143) as for microsporidia, and better performance than for parvovirus, the high percentages of support vectors during the test experiment indicated that it was not possible to accurately classify fish using gill chlamydia pathogen labels (Table 3.5).  39  Figure 3.4: Training ROC curves from gill chlamydia (top) at 15 features and parvovirus (bottom) at 50 features. 40  Figure 3.5: Test ROC curves from gill chlamydia (top) at 15 features and parvovirus (bottom) at 50 features. 41  Features SVs/TVs Training AUCs Test AUCs  2 0.743 0.834  3 0.857 0.853  5 0.857 0.924  10 0.814 0.914  15 0.857 0.939  25 1.000 0.922  50 1.000 0.884  0.476  0.577  0.709  0.778  0.852  0.903  0.898  Table 3.5: Training and test AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for gill chlamydia data.  Using a radial-basis kernel did not improve the performance of the algorithm and led to overfitting (Table 3.6). Features Linear Kernel Linear Kernel Radial Kernel Radial Kernel  AUC SVs/TVs AUC SVs/TVs  5 0.69 0.99 0.80 1.0  10 0.84 0.88 0.78 1.0  15 0.84 0.91 0.76 1.0  25 0.86 0.93 0.78 1.0  50 0.84 0.94 0.77 1.0  Table 3.6: Classification performance using gill chlamydia pathogen qPCR data with linear and radial basis kernel functions.  We originally suspected that pathogen-associated signals might be shared between pathogens or pathogen types. I checked the top 50 classification features for each pathogen for overlap. No classification features were shared between any of the pathogens during the initial experiment. In order to assess pathogen-specific transcriptional changes independently of our classification software’s built-in statistical methods, I conducted two sample t-tests to identify differentially expressed genes between infected and uninfected fish for all three pathogens. Fish which showed no infection by any pathogen were compared to fish infected only with mi-  42  crosporidia, gill chlamydia, and parvovirus, and fish infected with all three pathogens. False discovery rate was controlled for using the BenjaminiHochberg procedure (Benjamini and Hochberg, 1995). Corrected p-values (q-values) were used to define significant differential expression between disease states. Probes which showed a q ≤ 0.01 were judged significantly differentially expressed. Details of this analysis are shown in Table 3.7. Pathogen Probes  Microsporidia Gill Chlamydia 24 2,234  Parvovirus  All  8,625  3,958  Table 3.7: Numbers of significantly differentially expressed probes and genes for fish infected with each pathogen alone and fish infected with all pathogens compared to pathogen-free fish.  Eight genes were shared between the microsporidia and gill chlamydiaspecific signals, and the overlap is signficant (p = 1.53e-06). Five genes were shared between the microsporidia and parvovirus-specific signals (overlap not significant, p ≥ 0.05), and 432 genes were shared between the gill chlamydia and parvovirus-specific signals (not significant, p ≥ 0.05). The degree of overlap was greater than expected by chance between the multiple-pathogen signal and both microsporidia and parvovirus-specific signals was significant (7 and 833 probes, respectively, p ≤ 0.05), but not the gill chlamydia-specific signal (71 probes). The existence of a multiple-pathogen signal suggests, as other studies have (Jenner and Young 2005), that there is a common response to all infection types in addition to any infection type-specific response that occurs. This result stands at odds with the GIST’s inability to accurately classify 43  fish infected with gill chlamydia (Table 3.5) and a decrease in classifier performance when classifying fish infected with gill chlamydia alone (Table 3.9). However, I compared the top 50 classification features for gill chlamydia-only fish with the 2,234 probes identified as significantly differentially expressed, and found that the classification features were all also present in the list of differentially expressed probes. This indicates that while these probes were differentially expressed between fish infected with gill chlamydia and those that remained uninfected, they were not good classification features, indicated by their inability to accurately distinguish infected and uninfected fish.  3.6.1  Functional Enrichment Analysis of Pathogen-specific Probes  I used ErmineJ to evaluate the functional enrichment of the significantly differentially expressed gene sets between uninfected fish and fish infected with the three pathogens. GO groups were considered significantly enriched with a corrected p-value of ≤ 0.01. Genes associated with differentially expressed probes identified using fish that were infected with either parvovirus or microsporidia showed no significant enrichment for any GO terms. Differentially expressed genes identified in the presence of gill chlamydia showed significant enrichment for 13 GO categories, nine of which are related to ubiquitin, ubiquitin ligation, or ubiquitination. Details for significantly enriched GO groups, including p-values and numbers of associated genes and probes are available in appendix D.  44  3.6.2  Differences Between Pathogen Datasets  I surveyed CT values from each pathogen to determine whether the levels of infection were similar for each pathogen. Although the average CT value of fish testing positive for each pathogen was quite similar (Figure 3.6), standard deviation was greater for microsporidia (at 3.1) and parvovirus (at 3.2, with gill chlamydia at 1.8), and histograms of the data indicate that the proportion of fish with lower CT values (indicating more pathogen DNA in the starting material) is greater in microsporidia and parvovirus than in gill chlamydia (Figure 3.7).  45  Figure 3.6: CT values for fish testing positive for microsporidia, gill chlamydia, and parvovirus. Red points represent individual CT values. Low CT values indicate the presence of more pathogen DNA in the qPCR sample. A CT value of 38 indicates that there was no pathogen DNA present in the sample.  46  Figure 3.7: Histograms of CT values for microsporidia (top left), gill chlamydia (top right), and parvovirus (bottom). 47  Reasoning that the more pathogen DNA present in a host sample, the more severe the infection, I surmise that it may be possible to use CT values to infer the severity of infection in each fish. Further, I suspected that fish with the least severe infections would be more difficult to classify, since their transcriptional profiles would not deviate as significantly from normal as more severely infected fish. Comparing fish which were classified correctly as being infected by microsporidia (true positives) with fish that were incorrectly classified as not being infected with microsporidia (false negatives), I found that false negative fish had, on average, higher CT values that true positive fish (Figure 3.8). A two-sided Wilcoxon rank sum test shows this is not a significant difference (alpha=0.05, p-value=0.072).  48  Figure 3.8: CT values for fish testing positive for microsporidia, gill chlamydia, and parvovirus. Red points represent individual CT values. Low CT values indicate the presence of more pathogen DNA in the qPCR sample. A CT value of 38 indicates that there was no pathogen DNA present in the sample. True positive fish (n=58, mean CT=28.3) are those which are identified correctly as infected by the classifier, and false negative fish (n=12, mean CT=29.7) are those which are infected but are misclassified as uninfected. Remaining fish are either false positives or true negatives and have scores of 38 (not shown).  49  3.6.3  Classification of Fish Infected with Parvovirus Alone, or No Pathogens  The results of the independently-conducted t-tests on fish only infected with a single pathogen indicated that it may still be possible to classify fish using parvovirus qPCR data. I conducted an experiment with Gist classifying fish as infected or uninfected with parvovirus, but only attempting to classify fish that were infected with parvovirus alone (n=8), and fish that were not infected with parvovirus, microsporidia, or gill chlamydia (n=41). Parameters of Gist were adjusted as in previous experiments. The resulting AUCs and proportion of support vectors show a marked improvement in performance of the classifier (Table 3.8). Features Parvovirus Only AUCs Parvovirus SVs/TVs  2 0.60 0.97  3 0.95 0.43  5 0.94 0.43  10 0.93 0.37  15 0.93 0.41  25 0.93 0.47  50 0.92 0.61  Table 3.8: Training AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for parvovirus-only data.  Next I compared the results of the t-test and final classification experiments for parvovirus. Comparing top ranked classification features and significantly differentially expressed probes revealed that both methods had identified the same signal. Overlap between signals is incomplete, however, with only 11 of the top 25 classification features overlapping with the top 100 differentially expressed probes, and only 23 of the 25 best classification features being present in the entire set of 8,625 differentially expressed probes between parvovirus infected and uninfected fish. 50  3.6.4  Fish Infected with Multiple Pathogens  Next I tested the hypothesis that fish which were infected with more than one pathogen were more likely to be misclassified. Fish (n=63) which were infected with two or more pathogens were assessed in terms of their classification using microsporidia data. 54 of the 63 fish were classified correctly as being with or without microsporidia infection. 50 of these fish were positive (true positives) for microsporidia, and four were negative (true negatives). The remaining nine fish were incorrectly classified, with eight of them being infected (false negatives), and the last fish uninfected (false positive). This compared to fish which were only infected with microsporidia (n=12), where eight fish were true positives, and the remaining four were false negatives. Since fish which were infected by more than one pathogen were classified at least as well as fish only infected with the pathogen of interest in the case of microsporidia, this indicated that it was possible that a general infection signal was driving the classification performance for the original classification experiment. To test this, I classified fish infected with microsporidia alone, or no pathogens in the same manner that parvovirus-only fish were classified. Classification results did not improve for microsporidia-only fish compared to the previous classification experiment done agnostic of infection by other pathogens. Results largely indicate that the model was overfit. The results of the experiment are shown in Table 3.9. The performance drop of the microsporidia-only experiment in comparison to the original microsporidia experiment indicated that the fish which were infected with multiple pathogens were driving the classification in  51  the original experiment. To test this hypothesis I performed the classification experiment again, first using fish which were infected with more than one pathogen (n=63), then using fish which were infected with all three pathogens (n=7). Classification performance of fish infected with two or more pathogens, and fish infected with all three pathogens was comparable to the original microsporidia experiment. Results of these experiments are included in Table 3.9. Features Microsporidia Only AUCs Microsporidia SVs/TVs Multiple Pathogens AUCs Multiple Pathogens SVs/TVs All Pathogens AUCs All Pathogens SVs/TVs Gill Chlamydia Only AUCs Gill Chlamydia SVs/TVs  2 0.92 1.0 0.64 0.87  3 0.91 1.0 0.68 0.85  5 0.87 0.98 0.76 0.88  10 0.85 1.0 0.90 0.90  15 0.85 0.96 0.89 0.84  25 0.85 0.98 0.94 0.79  50 0.87 0.62 0.93 0.83  0.88 0.60 0.42  0.87 0.67 0.34  0.78 0.63 0.60  0.92 0.54 0.68  0.95 0.48 0.75  0.96 0.50 0.83  0.97 0.52 0.74  1.0  1.0  0.89  0.90  0.89  0.89  0.98  Table 3.9: Training AUC values along with the ratio of support vectors (SVs) to total vectors (TVs) for classification of microsporidia-only fish, fish infected with more than one pathogen, fish infected with all three pathogens, and gill chlamydia-only fish.  3.7  Using Control Probes to Normalize Data  Microsporidia pathogen data was used to evaluate the utility of using the control probes as a normalizing factor. The four permutations of gill data served as the four training sets, using Gist’s linear kernel and feature selection thresholds of 2, 3, 5, 10, 15, 25, and 50. The evaluation of classification  52  performance for each dataset is laid out in Table 3.10. Results indicate that the effect of normalization with a set of control genes has little influence on classification performance. A heatmap of selected controls compared to 25 top classification features for microsporidia is shown in Figure 3.9.  Figure 3.9: Heatmap showing the expression of the nine control probes alongside the expression from selected experimental probes.  53  Features NN AUCs NN SVs/TVs NN+CC AUCs NN+CC SVs/TVs QN AUCs QN SVs/TVs QN+CC AUCs QN+CC SVs/TVs  2 0.85 0.79 0.85 0.79  3 0.87 0.80 0.87 0.80  5 0.82 0.94 0.83 0.94  10 0.88 0.86 0.88 0.86  15 0.88 1.00 0.88 1.00  25 0.85 0.99 0.85 0.99  50 0.89 0.94 0.89 0.94  0.71 0.90 0.71 0.90  0.92 0.76 0.92 0.77  0.88 0.75 0.88 0.75  0.90 0.83 0.90 0.83  0.85 0.99 0.85 0.99  0.83 1.00 0.82 1.00  0.89 0.76 0.89 0.76  Table 3.10: Full dataset microsporidia training AUCs from non-normalized (NN) and quantile-normalized (QN) data that has been control corrected (CC) using the ten control probes selected. Alongside are shown the ratios of support vectors to total vectors (SVs/TVs) for each of the four sets of results.  54  Chapter 4  Discussion The results outlined above represent an important contribution to the growing body of knowledge of salmon genomics. Identified TS and housekeeping genes are certain to be useful to other researchers wishing to study Pacific salmon and closely related organisms, and my comparisons to mouse and human orthologs will provide valuable information to those who wish to study the nature of the relationship between salmon and other tetrapods, and demonstrate that expression patterns in salmonids are distinct from previously studied organisms. In the following sections I discuss the implications of my results, highlighting caveats and interpretations where appropriate.  4.1  What is an appropriate reference gene?  As laboratory experimentation has shifted its focus from experiments of a qualitative nature (i.e. PCR) to those of a more quantitative nature (qPCR), the properties that define appropriate control genes have changed. In the past, housekeeping genes like beta-actin and GAPDH were used as qualitative controls because their expression is ubiquitous. We now understand that even though these genes and others like them are always expressed, they are not always sufficiently invariant to be used as controls for precise 55  quantitative experiments such as qPCR (Tricarico et al. 2002, Rubie et al. 2005, McCurley and Callard 2008). The ideal control gene for a qPCR experiment would be one which is not influenced by any external experimental conditions, and is invariant in its expression across cell types in addition to being ubiquitously expressed. Some have questioned whether there are any genes which fit this definition (Tricario et al. 2002, de Jonge et al. 2007). In recent years, however, thousands of candidate reference genes have been identified using large-scale microarray analyses of many tissue types and developmental stages (Shulzhenko et al. 2005, Lee et al. 2006, de Jonge et al. 2007, Popovici et al. 2009, She et al. 2009, Narsai et al. 2010, Fedrigo et al. 2010, Cheng et al. 2011, Chang et al. 2011). These genes show little variation across the conditions under which they were identified, and thus would be appropriate reference genes for experiments conducted under those same conditions. However, care should still be taken choosing reference genes when conducting new experiments. For every experiment, there exits a unique set of conditions which influence variability of gene expression. The invariant genes which I have identified will serve as useful controls under similar conditions and in the same tissues that I have analysed. For example, I would advise caution to any researcher who wished to use these genes as controls in a qPCR study of farmed salmon fry due to the lack of any fry or farmed salmon samples in the datasets used to discover them. In addition, the methods I used to identify reference genes will be useful for any researchers wishing to identify their own set of appropriate references, should their experimental conditions be significantly different from mine. 56  4.2  Comparison of Salmon to Mouse and Human Genes  By validating our newly discovered salmon housekeeping and TS genes on their human and mouse counterparts, I was able to demonstrate two things. Firstly, that the 44k cGRASP array’s probe annotations were likely to be accurate in many cases, as I observed homologous genes with similar expression patterns in both human and salmon. However, this by no means guarantees the accuracy of all of the annotations. This was an important finding due to the fact that the array annotations were populated almost entirely from homology, which is not a clear indication of function. Secondly, I showed that there was significant conservation of TS expression profiles from salmon to both human and mouse. Conservation of expression is not a new area of study, and assessments of human and mouse expression conservation are numerous (Liao and Zhang 2006a, Liao and Zhang 2006b, Yanai et al. 2006, Xing et al. 2007, Xie et al. 2010). To my knowledge, there are no existing large-scale studies comparing tissue-specific or housekeeping and reference genes in multiple tissues of teleost fish and mammals.  4.2.1  Biological Implications of Overlap  The significant degree of overlap found in both housekeeping genes and TS genes indicates that the expression patterns of homologs tend to be conserved between species. Logically, homologs which are conserved in their expression patterns may also be conserved in their functions, but whether 57  the conservation of expression patterns is a reflection of conservation of gene function appears to be a point of contention (Liao and Zhang 2006b, Xing et al. 2007). Differences in the overlap between mouse and salmon TS genes may be due to technical as well as biological differences in the datsets used to generate them. First, although the mouse dataset samples more tissues, it has a few samples per tissue, and thus the reliability of each ’call’ made on a TS gene is less than in the salmon dataset, which has hundreds of samples per tissue. Second, salmon have experienced at least two genome duplications since their most recent common ancestor with humans and mice (Wolfe 2001). A daughter copy of a gene may adopt a new function after duplication, due to a loss of selective pressure. Thus, when separated by a genome duplication, any two homologous genes are not guaranteed to share functions. In fact it would seem that salmon-human or salmon-mouse homologs are even less likely to share their functions, as they are separated by multiple genome duplications. Noise in each dataset is also a concern, particularly in the mouse dataset (due to its low number of samples), and in the salmon dataset due to the fact that the samples are from the wild. Both experiments, however, were run on oligonucleotide arrays. This array technology minimizes technical noise with better hybridization efficiency and more consistent RNA levels in each spot compared to cDNA arrays (Barrett and Kawasaki 2003), so any differences observed are more likely to be biological in nature. I found that brain genes show the lowest percentage of overlap of the 58  three tissues surveyed (Table 3.2), while liver shows the highest. Fish have a smaller fraction of cortical tissue to total brain volume compared to mice. I hypothesize that this may be the reason brain was shown to be the least similar tissue.  4.2.2  Functional Enrichment of TS Genes  The results of the functional enrichment analysis of tissue specific genes demonstrates first that the lists of tissue-specific genes in muscle and liver are enriched for processes and functions known to occur in said tissues, and second that despite the low level of annotations on the array, analysis of the annotations can potentially shed light on and provide insight into the biological processes occurring during other experimental conditions in addition to simple tissue-specifc differences.  4.3  SVM Classification  I chose to use an SVM to classify our samples because we had the opportunity to conduct a supervised learning experiment using the pathogen qPCR data. SVMs are not the only option for conducting such an experiment, but they have been shown to be effective (Brown et al. 2000, Furey et al. 2000), and to perform as well as other similary sophisticated methods (Byvatov et al. 2003, Jayasura et al. 2010). Using GIST, I was able to accurately and reliably classify fish using parvovirus, but not gill chlamydia or microsporidia labels. The pathogen-specific signal in microsporidia was unique when compared  59  with the signals associated with other pathogens. Having access to usable data from only one pathogen of each type (fungal, bacterial, viral) prevented us from comparing pathogens of the same type infecting the same tissue. Perhaps another bacterial infection of the gill compared to gill chlamydia would have yielded an overlap of pathogen-type-specific probes. Indeed, immune responses to different pathogen types are known to be distinct (reviewed in Medzhitov 2007). I had the opportunity to explore several potentially confounding factors in this analysis. The high co-incidence of the pathogens, especially the co-incidence of parvovirus and microsporidia, appears to have confounded the initial classification experiments. Microsporidia-infected fish initially appeared easy to classify, but considering the subsequent analyses, including the classification of fish infected with multiple pathogens, it appears that the classification performance was enhanced by fish which were infected with other pathogens. Classification performance also worsened for gill chlamydia-infected fish when fish infected with other pathogens were removed from the data. The only improvement in classification performance after the removal of fish infected with other pathogens from the data came from parvovirus-infected fish. Taking all the analyses into account, it appears that the strongest signals in the data belong to parvovirus, and what might be called a general-infection-response. We chose to use binarized data because using continuous data did not improve classification performance (data not shown). The selection of features, however, was almost certainly affected by this. Fish in which a pathogen was detected, but were not adversely affected by it represent a confounding 60  factor as well, as they would not be responding to the pathogen(s) in the same way as fish which were affected more severely, and thus would exhibit different patterns of expression. The most effective features for classifying fish using microsporidia pathogen qPCR data had few annotations, with only two of the top 15 probes having any annotation at all. Thus, any biological conclusions drawn from these results would not be particularly useful until more salmon genes are identified and annotated.  4.4  Functional Enrichment of Pathogen-Specific Signals, and Infection-Type-Specific Responses  I was able to identify pathogen-specific gene expression changes independent of the classification experiment, with good agreement between these and the classification features. However, interpretation of these pathogen-specific expression profiles is limited in scope due to the nature of our annotations. Functional enrichment analyses of our pathogen-specific signals did not reveal anything about the biological processes being driven by the infections. I hypothesize that this is largely because of the lack of annotations on the 44k cGRASP microarray, as well as the provenance of the annotations that do exist. With regard to response to viral infection, it is possible that the parvovirusinfected fish in this study might have shown responses in some or all of the  61  117 genes identified by Krasnov et al. during initial infection. However, information on when fish were infected in relation to when they were sampled is not available for incorporation into the analysis.  4.5  Using Control Genes to Normalize Data  Our use of control probes in this classification experiment was an attempt to mimic what would happen in management applications, i.e. an individual fish is sampled and tested, and a judgement is made about its health, independent of other tests. Genes which do not vary greatly in their expression across species, life stages, and tissues would be ideal controls in this type of experiment. Control genes are crucial to qPCR experiments for a number of reasons. An appropriately selected control will allow for the normalization of sample specific differences arising from quality and amount of starting material, and from variation in experimental preparation (Radonic et al. 2004). In seeking to model a qPCR experiment in silico, it was important that we selected appropriate controls. The salmon housekeeing genes we discovered using our microarray data presented us with a pool of eligible controls to choose from. I chose probes which correlated with each other across samples because logically, they appeared to respond to any sample-specific differences in intensity in kind. Using these probes as controls did not improve the performance of the classifier, even with non-normalized data. The evident failure of this normalization procedure to improve the classification performance need not be taken as an indication that the selected  62  housekeeping genes were inappropriate controls, though. Controls in qPCR experiments are used to eliminate technical sources of variation between samples, such as differing levels of starting RNA and reagents, and different amplification efficiencies (reviewed in Tricario et al. 2002). We applied our controls in a similar way to oligonucleotide microarray data, which is largely devoid of this type of technical noise (Barrett and Kawasaki 2003). In effect, we were correcting for noise which was not present even in the non-normalized experimental channels of our arrays.  4.6  Conclusion  My thesis objectives were two-fold. The first was to increase our knowledge of basic salmon genomics. The discovery of housekeeping and TS genes and their evaluation against human and mouse orthologs will provide new information and insight to those who wish to study pacific salmon in the future. Housekeeping genes in particular may prove useful as controls for quantitative experiments conducted on salmon such as qPCR. 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BMC Bioinformatics, 7(1):197, Apr. 2006.  76  Appendix A  Reference Gene Candidates Probe  Gene Symbol  Gene.Description  C145R129  BTF3  basic transcription factor 3  C164R042  RPL28  ribosomal protein l28  C093R112  RPS9  ribosomal protein s9  C070R042  RPL27A  60s ribosomal protein l27a  C143R009  EEF1B2  eukaryotic translation elonga-  C200R057 C021R090  tion factor 1 beta 2 C129R133  RPL10A  ribosomal protein l10a  C153R098  RPL32  ribosomal protein l32  C114R142  FLI1  friend leukemia virus integration 1  C042R031  RPS27  ribosomal protein s27  C079R090  CIAO1  wd repeat domain 39  C162R088  RPL35  ribosomal protein l35  C041R056  77  Probe  Gene Symbol  Gene.Description  C077R093  PURB  purine-rich element binding protein b  C025R044  BTF3  basic transcription factor 3  MRPS16  mitochondrial ribosomal pro-  C054R164 C195R165 C058R062  tein s16 C030R115 C022R040  MAP1LC3C  microtubule-associated  pro-  tein 1 light chain 3 gamma C025R049  DNAJC8  dnaj (hsp40) homolog, subfamily c, member 8  C071R079  MRPS21  mitochondrial ribosomal protein s21  C129R089  IMPA1  inositol monophosphatase  C116R156  ARF4  adp-ribosylation factor 4  C141R026  Arpc5l|ARPC5L2  actin  C090R018 C022R081 C033R026  related  protein  2/3  complex, subunit 5-like|actinrelated protein 2/3 complex subunit 5-like protein  78  Probe  Gene Symbol  Gene.Description  C054R129  NDUFC1  nadh  dehydrogenase  (ubiquinone)  1,  subcom-  plex unknown, 1 (6kd, kfyi) C148R021  NEDD8  ubiquitin-like protein nedd8  C159R162  NDUFB3  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 3, 12kda C050R066  NAA38  u6 snrna-associated sm-like protein lsm8  C060R132 C240R084  RPS15A  ribosomal protein s15a  C086R165  PDCL3  phosducin-like 3  C030R073  NDUFA9  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 9 C082R118  COX6B1  riken cdna 2010000g05 gene  C229R093  NDUFS4  nadh (ubiquinone)  dehydrogenase fe-s  protein  4 C095R159  AK2  adenylate kinase 2  C084R048  MOG1  nuclear import protein mog1  79  Probe  Gene Symbol  Gene.Description  C211R103  TOMM7  translocase of outer mitochondrial membrane 7 homolog (yeast)  C123R127  LOC782270|ATP5E  atp synthase subunit epsilon, mitochondrial|atp  synthase,  h+ transporting, mitochondrial  f1  complex,  epsilon  subunit C227R040 C158R076  RPS27  ribosomal protein s27  RHOA  ras  C165R096 C132R044  homolog  gene  family,  member a C036R132 C202R042  MYL12A  myosin regulatory light chain 2, smooth muscle isoform  C100R039  CAPZA2  capping protein (actin filament) muscle z-line, alpha 2  C202R072  NDUFA2  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 2, 8kda C237R156 C132R037  CTP  cut up  80  Probe  Gene Symbol  Gene.Description  C142R048  RPS9  ribosomal protein s9  C164R051  CTP  cut up  DDRGK1  uncharacterized  C134R045 C021R098  protein  c20orf116 homolog precursor C008R042 C098R086  RPL8  ribosomal protein l8  C160R137  DNAJC8  dnaj (hsp40) homolog, subfamily c, member 8  C159R041 C197R023 C083R102  CTP  cut up  RHOA  ras  C111R076 C188R102 C045R047  homolog  gene  family,  member a C164R013 C173R039  BTF3  basic transcription factor 3  C160R066  LAS1L  las1-like (s. cerevisiae)  EIF1B  eukaryotic translation initia-  C092R004 C175R086  tion factor 1b C107R092  RPL35  ribosomal protein l35  81  Probe  Gene Symbol  Gene.Description  C003R028  OCIAD1  zgc:56639  C146R157  NDUFA10  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 10, 42kda C150R036  UBE2I  ubiquitin-conjugating enzyme e2i  C027R129 C046R159  RPS27  ribosomal protein s27  C116R136  BTF3  basic transcription factor 3  C117R108  SEPT5  septin-5  C11ORF73  uncharacterized  C143R167 C107R074  protein  c11orf73 homolog C205R168  NDUFA2  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 2, 8kda C151R166 C240R095 C134R068 C090R062 C080R092  NDUFS7  nadh (ubiquinone)  dehydrogenase fe-s  protein  7, 20kda  82  Probe  Gene Symbol  Gene.Description  C012R006  MRPL28  39s ribosomal protein l28, mitochondrial precursor  C201R142  PELO  pelota homolog (drosophila)  C011R048  NDUFA8  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 8 C130R151  NEDD8  ubiquitin-like protein nedd8  NDUFS7  nadh  C198R109 C185R153  dehydrogenase  (ubiquinone)  fe-s  protein  gene  family,  7, 20kda C237R108  RHOA  ras  homolog  member a C108R026 C214R040  RPL36A  ribosomal protein l36a  C099R147  NDUFC1  nadh  dehydrogenase  (ubiquinone)  1,  subcom-  plex unknown, 1 (6kd, kfyi) C092R040  COX16  cox16-like protein c14orf112 homolog, mitochondrial precursor  C025R124  ACVR1B  activin a receptor, type ib  C205R047  MRPL23  zgc:86630  83  Probe  Gene Symbol  Gene.Description  C162R138  UQCRH  ubiquinol-cytochrome c reductase hinge protein  C178R107  EIF3E  eukaryotic translation initiation factor 3 subunit e  C057R077  ATP5H  atp synthase, h+ transporting, mitochondrial f0 complex, subunit d  C123R094  EIF1AX  eukaryotic translation initiation factor 1a, x-linked  C037R028  DBI  diazepam binding inhibitor (gaba  receptor  acyl-coenzyme  modulator, a  binding  protein) C023R084  PSMA1  proteasome  (prosome,  macropain) subunit,  alpha  type, 1 C204R125  DNAJC8  dnaj (hsp40) homolog, subfamily c, member 8  C143R033  BTF3  basic transcription factor 3  C209R036  PCDH17  protocadherin-17 precursor  C225R111  COX6B1  riken cdna 2010000g05 gene  C115R096  CAPZA1  capping protein (actin filament) muscle z-line, alpha 1  84  Probe  Gene Symbol  Gene.Description  HNRNPR  heterogeneous nuclear ribonu-  C059R134 C030R079  cleoprotein r C133R109  NDUFA12  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 12 C138R041  CAPZA2  capping protein (actin filament) muscle z-line, alpha 2  C163R149 C184R144  MYL6L  myosin light polypeptide 6  C108R048  TRAPPC2L  riken cdna 1810017g16 gene  C056R152  EIF3E  eukaryotic translation initiation factor 3 subunit e  C093R122  POMP  chromosome 13 open reading frame 12  C076R048  PSMA1  proteasome  (prosome,  macropain) subunit,  alpha  type, 1 C179R073  RPL8  ribosomal protein l8  C246R165  MRPL23  zgc:86630  BTF3  basic transcription factor 3  C200R075 C194R007 C017R109  85  Probe  Gene Symbol  Gene.Description  ACP1  low molecular weight phos-  C069R053 C004R145  photyrosine  protein  phos-  phatase C204R098  MRPL23  zgc:86630  C097R112  ALDH6A1  aldehyde dehydrogenase family 6, subfamily a1  C069R071  VPS24  zgc:76972  NDUFA7  nadh  C174R043 C157R117 C139R089  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 7, 14.5kda C155R068  PSMA1  proteasome  (prosome,  macropain) subunit,  alpha  type, 1 C210R144  GM3873  nadh  dehydrogenase  [ubiquinone]  1  beta  sub-  complex subunit 4 C227R100 C054R150  GLO1  glyoxylase 1  C071R088  CD97  cd97 antigen  C150R007  ZGC:77767  zgc:77767  86  Probe  Gene Symbol  Gene.Description  C071R106  RPL35  ribosomal protein l35  C169R086  NEDD8  ubiquitin-like protein nedd8  C039R081  EIF2C2  eukaryotic translation initiation factor 2c 2  C103R004  SF3B5  splicing factor 3b, subunit 5, 10kda  C161R140  POMP  chromosome 13 open reading frame 12  C007R079 C067R156 C117R027  PMPCB  peptidase (mitochondrial processing) beta  C140R059  CTP  cut up  C118R048  PSMA1  proteasome  (prosome,  macropain) subunit,  alpha  type, 1 C142R036 C180R080  CTP  cut up  C109R005  MTPN  myotrophin  C151R148  RPL8  ribosomal protein l8  C183R066  RHOA  ras  homolog  gene  family,  member a  87  Probe  Gene Symbol  Gene.Description  C157R140  GNL3L  guanine nucleotide binding protein-like 3 (nucleolar)-like  C025R026  LSM6  lsm6 homolog, u6 small nuclear rna associated (s. cerevisiae)  C146R041  DYNC1I2  dynein cytoplasmic 1 intermediate chain 2  C113R024 C118R137  SUCLG1  succinate-coa  ligase,  gdp-  forming, alpha subunit C055R024  C6ORF125  chromosome 6 open reading frame 125  C113R101  ZGC:56702  zgc:56702  C050R005  SPAG7  sperm-associated antigen 7  C031R134  GDI2  gdp dissociation inhibitor 2  C198R084  RPL10A  ribosomal protein l10a  C084R159  RAP1A  ras-related protein rap-1a pre-  C105R059 C088R016 C194R163 C027R009  cursor C155R165  NEDD8  ubiquitin-like protein nedd8  88  Probe  Gene Symbol  Gene.Description  C172R014  NDUFS1  nadh (ubiquinone)  dehydrogenase fe-s  protein  1, 75kda (nadh-coenzyme q reductase) C186R044  CAPZA1  capping protein (actin filament) muscle z-line, alpha 1  C106R134  CAPZA2  capping protein (actin filament) muscle z-line, alpha 2  C211R097  COX17  cytochrome c oxidase, subunit xvii assembly protein homolog (yeast)  C077R067 C196R091  NDUFS7  nadh (ubiquinone)  dehydrogenase fe-s  protein  7, 20kda C102R106  CYB5A  cytochrome b5  CCDC25  coiled-coil domain containing  C209R040 C117R125 C245R086  25 C183R067  ALDH6A1  aldehyde dehydrogenase family 6, subfamily a1  C086R084  89  Probe  Gene Symbol  Gene.Description  C095R054  PRDX5  peroxiredoxin 5  C024R012  COX5A  cytochrome c oxidase, subunit va  C175R061 C159R115 C067R044 C062R108 C218R038  RNF7  ring finger protein 7  C031R157  C6ORF125  chromosome 6 open reading frame 125  C256R068 C216R042 C151R080  MYL6L  myosin light polypeptide 6  C022R169  EIF3S6IP  eukaryotic translation initiation factor 3, subunit 6 interacting protein  C259R046  NDUFA2  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 2, 8kda C057R010  PRPF31  prp31 pre-mrna processing factor 31 homolog (yeast)  C098R063  RPL10  ribosomal protein l10  C216R058  90  Probe  Gene Symbol  Gene.Description  C178R112  ZGC:77767  zgc:77767  C239R170  TAF7  taf7 rna polymerase ii, tata  C212R133  box binding protein (tbp)associated factor, 55kda C024R106  HPRT1  hypoxanthine guanine phosphoribosyl transferase 1  C058R036  RPL32  ribosomal protein l32  AP3S1  adaptor-related protein com-  C247R148 C018R053  plex 3, sigma 1 subunit C239R035 C026R072  H3F3B  h3 histone, family 3b  C123R105  RPS5  ribosomal protein s5  C237R133  MRPS18C  mitochondrial ribosomal protein s18c  C065R135 C158R073 C175R020  NDUFS4  nadh (ubiquinone)  dehydrogenase fe-s  protein  4 C047R097  COMMD3  comm domain containing 3  C024R116  91  Probe  Gene Symbol  Gene.Description  SUMO2  small ubiquitin-related modi-  C155R033 C067R031 C091R029 C163R013  fier 2 precursor C079R091  HMP19  hmp19 protein  TMED9  transmembrane  C031R108 C080R105  emp24  domain-containing protein 9 precursor C253R050  POMP  chromosome 13 open reading frame 12  C020R052 C145R067  CYC1  cytochrome c-1  PMPCB  peptidase (mitochondrial pro-  C258R036 C021R105  cessing) beta C007R129  SKP1  s-phase kinase-associated protein 1  C206R096 C099R014  CDC42  cell division cycle 42 (gtp binding protein, 25kda)  92  Probe  Gene Symbol  Gene.Description  C228R113  POLR1D.2  dna-directed rna polymerases i and iii subunit rpac2  C020R011  SPAG7  sperm-associated antigen 7  AIFM1  programmed  C248R066 C125R082  cell  death  8  (apoptosis-inducing factor) C225R025  OSTC  upf0527 membrane protein  C081R153  AKTIP  fused toes homolog (mouse)  C239R139  MRPS18C  mitochondrial ribosomal pro-  C105R136  tein s18c C132R017 C125R058  ZGC:73136  zgc:73136  NDUFV2  nadh  C016R077 C053R132  dehydrogenase  flavo-  protein 2 (24kd) [ubiquinone] [nadh-ubiquinone  reductase  24 kda mitochondrial] C237R030 C224R084  NDUFV1  nadh (ubiquinone)  dehydrogenase flavoprotein  1, 51kda C182R023  SPAG7  sperm-associated antigen 7  93  Probe  Gene Symbol  Gene.Description  C010R103  DBI  diazepam binding inhibitor (gaba  receptor  acyl-coenzyme  modulator, a  binding  protein) C104R088 C136R074  SPAG7  sperm-associated antigen 7  NME1  expressed in non-metastatic  C096R024 C048R161  cells 1 C135R101  LOC100048613|COX7C  cytochrome c oxidase subunit  7c,  mitochondrial  precursor|cytochrome  c  oxidase, subunit viic C073R068  SS18L2  synovial sarcoma translocation gene on chromosome 18like 2  C021R085  NDUFS3  nadh (ubiquinone)  dehydrogenase fe-s  protein  3, 30kda (nadh-coenzyme q reductase) C139R044  NDUFB7  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 7, 18kda  94  Probe  Gene Symbol  Gene.Description  C082R119  RPL7  ribosomal protein l7  C011R012  NDUFB8  nadh dehydrogenase 1 beta  C172R147  subcomplex 8 C172R109 C041R101 C166R123 C090R051  AIFM1  programmed  cell  death  8  (apoptosis-inducing factor) C186R007  H3F3B  h3 histone, family 3b  C003R071  EIF4EBP2  eukaryotic translation initiation factor 4e binding protein 2  C104R153  NOX1  nadph oxidase 1  C221R170  RPS12  ribosomal protein s12  C036R057  EIF3K  eukaryotic translation initia-  C061R054  tion factor 3 subunit k C128R137  PRDX4  peroxiredoxin 4  MIF  macrophage  C148R075 C022R038  migration  in-  hibitory factor (glycosylationinhibiting factor)  95  Probe  Gene Symbol  Gene.Description  C107R098  YWHAE  tyrosine  3-  monooxygenase/tryptophan 5-monooxygenase  activation  protein, epsilon polypeptide C101R029  EIF3K  eukaryotic translation initiation factor 3 subunit k  C057R136  NME1  expressed in non-metastatic cells 1  C153R151 C045R033  COX6B1  riken cdna 2010000g05 gene  C055R165  HNRNPAB  heterogeneous nuclear ribonucleoprotein a/b  C149R085 C166R054 C155R003  H3F3B  h3 histone, family 3b  C157R110  TMEM167A  transmembrane protein 167 precursor  C191R071 C031R025  SMOC1  sparc-related calcium-binding  modular protein  1  precursor C064R117  PRDX5  peroxiredoxin 5  96  Probe  Gene Symbol  Gene.Description  C246R071  SKIV2L2  superkiller viralicidic activity 2-like 2 (s. cerevisiae)  C223R045  ACP1  low molecular weight phosphotyrosine  protein  phos-  phatase C026R091  ATP5G3  atp synthase, h+ transporting, mitochondrial f0 complex, subunit c (subunit 9) isoform 3  C075R117  TRAPPC3  trafficking  protein  particle  complex 3 C077R055  PPIL3  peptidylprolyl  isomerase  (cyclophilin)-like 3 C162R080 C052R131  VAMP3  vesicle-associated membrane protein 3  C101R041  HPRT1  hypoxanthine guanine phosphoribosyl transferase 1  C076R044  MESDC2  mesoderm development candidate 2  C236R056  AHSA1  aha1, activator of heat shock 90kda protein atpase homolog 1 (yeast)  97  Probe  Gene Symbol  Gene.Description  C078R037  CYC1  cytochrome c-1  C101R109  RPL32  ribosomal protein l32  C229R153  HSP90B1  tumor  rejection  antigen  (gp96) 1 C019R165  CDC42  cell division cycle 42 (gtp binding protein, 25kda)  C125R092  PSMB2  proteasome macropain)  (prosome, subunit,  beta  type 2 C139R029 C006R100  UFC1  ubiquitin-fold modifier conjugating enzyme 1  C022R021  MATR3  matrin 3  C192R153  PPP1CB  protein phosphatase 1, catalytic subunit, beta isoform  C115R132 C138R076 C151R102  ANP32B  similar to acidic leucine-rich nuclear  phosphoprotein  32  family member b (phapi2 protein)  (silver-stainable  protein ssp29) (acidic protein rich in leucines)  98  Probe  Gene Symbol  Gene.Description  C214R007  RPS20  ribosomal protein s20  C173R162  NME1  expressed in non-metastatic cells 1  C006R156 C003R023  PSMA3  proteasome alpha 3 subunit isoform 1  C216R029  PPP1CB  protein phosphatase 1, catalytic subunit, beta isoform  C162R097  ANP32A  acidic (leucine-rich) nuclear phosphoprotein  32  family,  member a C152R080  ARL2  adp-ribosylation  factor-like  protein 2 C035R156  AIFM1  programmed  cell  death  8  (apoptosis-inducing factor) C022R096 C224R108  DBI  diazepam binding inhibitor (gaba  receptor  acyl-coenzyme  modulator, a  binding  protein) C185R064 C137R035  ACADVL  acyl-coenzyme a dehydrogenase, very long chain  99  Probe  Gene Symbol  Gene.Description  C003R131  FIS1  fission 1 (mitochondrial outer membrane) homolog (yeast)  C101R014 C015R042  POMP  chromosome 13 open reading frame 12  C146R075  ARPC3  actin related protein 2/3 complex, subunit 3, 21kda  C054R152  HNRNPA3  heterogeneous nuclear ribonucleoprotein a3 homolog 2  C235R089 C150R150  MRPL13  mitochondrial ribosomal protein l13  C243R095 C133R022 C161R124  GSTA  glutathione  s-transferase  class-alpha C028R062  OCIAD1  zgc:56639  C006R088  PRDX5  peroxiredoxin 5  C204R154  GSTK1  glutathione s-transferase sub-  C256R136  unit 13 homolog C077R020 C035R038  VPS24  zgc:76972  100  Probe  Gene Symbol  Gene.Description  C052R015  C6ORF125  chromosome 6 open reading frame 125  C144R142  RAB6  rab6, member ras oncogene family  C075R123  GNG5  guanine nucleotide binding protein (g protein), gamma 5 subunit  C159R165 C073R018  BLMH  bleomycin hydrolase  C216R021  GM3873  nadh  dehydrogenase  [ubiquinone]  1  beta  sub-  complex subunit 4 C052R169 C063R046  PPIF  peptidylprolyl isomerase f (cyclophilin f)  C222R051  PRDX5  peroxiredoxin 5  C115R120  RBM45  developmentally  regulated  rna-binding protein 1 C024R169 C145R096 C245R055  CYTB  cytochrome b  C028R059  EIF1B  eukaryotic translation initiation factor 1b  101  Probe  Gene Symbol  Gene.Description  EIF3K  eukaryotic translation initia-  C019R140 C081R020  tion factor 3 subunit k C097R028  SELT1A  selenoprotein t1a precursor  C031R156  PSMA4  proteasome  (prosome,  macropain) subunit,  alpha  type 4 C018R150  THOP1  thimet oligopeptidase 1  C048R079  PDCL3  phosducin-like 3  LSM4  lsm4 homolog, u6 small nu-  C100R160 C149R161  clear rna associated (s. cerevisiae) C107R028  RPS20  ribosomal protein s20  C151R034  SNX12  sorting nexin 12  SERPINA10  serine (or cysteine) pepti-  C082R087 C135R117  dase inhibitor, clade a (alpha1 antiproteinase, antitrypsin), member 10  102  Probe  Gene Symbol  Gene.Description  C017R049  DBI  diazepam binding inhibitor (gaba  receptor  acyl-coenzyme  modulator, a  binding  protein) C129R101  PRDX5  peroxiredoxin 5  C150R065  THOP1  thimet oligopeptidase 1  C051R144  SERPINA10  serine (or cysteine) peptidase inhibitor, clade a (alpha1 antiproteinase, antitrypsin), member 10  C139R074  BZW1A  basic leucine zipper and w2 domain-containing protein 1a  C150R077  RWDD1  rwd domain containing 1  C056R062  PDCL3  phosducin-like 3  C110R138  PPIF  peptidylprolyl isomerase f (cyclophilin f)  C024R001  HSPA4  heat shock 70kda protein 4  H2AFY2  h2a histone family, member  C147R114 C071R037 C017R128  y2 C017R085  COPS3  zgc:55643  103  Probe  Gene Symbol  Gene.Description  C200R006  BCCIP  brca2 and cdkn1a interacting protein  C115R010 C256R007 C244R123  TTN|TTN  titin|titin  C119R021  DNAJC19  mitochondrial import inner membrane translocase subunit tim14  C166R018  DBI  diazepam binding inhibitor (gaba  receptor  acyl-coenzyme  modulator, a  binding  protein) C096R032  RPL12  ribosomal protein l12  C056R095  UQCRFS1  ubiquinol-cytochrome c reductase,  rieske  iron-sulfur  polypeptide 1 C013R015  H3F3B  h3 histone, family 3b  C252R151  RHOA  ras  homolog  gene  family,  member a C123R139  NDUFA1  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 1  104  Probe  Gene Symbol  Gene.Description  C105R154  AIFM1  programmed  cell  death  8  (apoptosis-inducing factor) C206R053 C130R097 C068R061 C025R161  PSMB2  proteasome macropain)  (prosome, subunit,  beta  type 2 C004R127 C078R143  PTGES3  prostaglandin e synthase 3 (cytosolic)  C010R060  BRP44  brain protein 44  C016R020  SPRY1  protein sprouty homolog 1  MRPS25  mitochondrial ribosomal pro-  C213R009 C025R125 C108R128  tein s25 C191R100  STK19  serine/threonine kinase 19  C204R049  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 6, 17kda C228R068  PRDX5  peroxiredoxin 5  C105R090  105  Probe  Gene Symbol  Gene.Description  C253R028  LOC100006097|BTF3L4  transcription factor btf3 homolog 4|basic transcription factor 3-like 4  C073R152  HNRNPA3  heterogeneous nuclear ribonucleoprotein a3 homolog 2  C148R026  SELS  selenoprotein s  SMNDC1  survival motor neuron domain  C170R149 C185R135  containing 1 C220R105 C156R086 C020R039 C153R109  COPS3  zgc:55643  C225R021  NONO  non-pou-domain-containing, octamer binding protein  C076R009  NDFIP1L  nedd4 family-interacting protein 1  C163R122 C024R025  SNX4  sorting nexin 4  C215R027  EIF4EBP2  eukaryotic translation initiation factor 4e binding protein 2  C154R072  ROMO1  protein mgr2 homolog  106  Probe  Gene Symbol  Gene.Description  C160R036  GSTA4  glutathione  s-transferase  alpha-4 C034R130  RTN4  reticulon 4  HPRT1  hypoxanthine guanine phos-  C186R113 C035R034  phoribosyl transferase 1 C088R084  PRDX6  peroxiredoxin 6  C181R046  PSMA6  proteasome  (prosome,  macropain) subunit,  alpha  type 6 C227R076  ZC3H15  likely ortholog of mouse immediate early response, erythropoietin 4  C184R148  EEF1B2  eukaryotic translation elongation factor 1 beta 2  C236R089  ZNF706  zinc finger protein 706  CDC42  cell division cycle 42 (gtp  C006R147 C162R143  binding protein, 25kda) C111R107 C159R132  PSMD14  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 14  107  Probe  Gene Symbol  Gene.Description  C086R104  Vdac1  voltage-dependent  anion  channel 1 C181R133 C079R036  WDR76  wd repeat domain 76  C263R017  MRPL40  nuclear  localization  deleted  in  signal  velocardiofacial  syndrome C073R012  WHSC2  wolf-hirschhorn  syndrome  candidate 2 (human) C145R052  PDCL3  phosducin-like 3  C077R153  TTLL6  tubulin polyglutamylase ttll6  C197R020  C4A  complement component 4a  C140R122  MGST3  microsomal  glutathione  s-transferase 3 C031R126  UBE2V1  similar conjugating  to  ubiquitinenzyme  e2  variant 1 isoform d C236R152 C150R050 C071R169 C092R052  ILF3B  interleukin enhancer-binding factor 3 homolog  108  Probe  Gene Symbol  Gene.Description  C165R139  GNG5  guanine nucleotide binding protein (g protein), gamma 5 subunit  C073R020  COX7A2L  cytochrome c oxidase subunit viia polypeptide 2 like  C055R151  ERLIN2  spfh domain family, member 2  C100R011  ATP6V0E1  atpase, h+ transporting, lysosomal 9kda, v0 subunit e  C218R021  TXNDC9  thioredoxin domain containing 9  C036R165 C166R073 C111R009  PELO  pelota homolog (drosophila)  C118R073  PHB2  prohibitin 2  C064R046  EEF1D  eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)  C047R050  POB  partial optokinetic response b  C069R148  PSME1  proteasome macropain)  (prosome, 28  subunit,  alpha C048R142  ROMO1  protein mgr2 homolog  109  Probe  Gene Symbol  Gene.Description  C192R122  PMPCB  peptidase (mitochondrial processing) beta  C165R031 C196R006 C049R112  DDX21  dead  (asp-glu-ala-asp)  box  polypeptide 21 C221R053 C207R118 C055R012 C149R134  SUMO1|LOC100003435  smt3 suppressor of mif two 3 homolog 1 (yeast)|small ubiquitin-related modifier 1 precursor  C010R117  HIGD2A  hig1 domain family, member 2a  C159R168 C029R126 C015R025  MATR3  matrin 3  C157R103  NSFL1C  nsfl1 (p97) cofactor (p47)  C168R161  H3F3B  h3 histone, family 3b  C039R042  RAD23B  rad23 homolog b (s.  cere-  visiae) C172R124  MYL6L  myosin light polypeptide 6  110  Probe  Gene Symbol  Gene.Description  C139R071  PCBD1  pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1  C217R062  DBI  diazepam binding inhibitor (gaba  receptor  acyl-coenzyme  modulator, a  binding  protein) C201R117  AKTIP  fused toes homolog (mouse)  Mrpl22  60s ribosomal protein l22, mi-  C136R157 C082R099  tochondrial precursor C100R122 C199R036  ROMO1  protein mgr2 homolog  UQCRH  ubiquinol-cytochrome c re-  C244R125 C133R146 C184R038 C113R046 C213R055  ductase hinge protein C117R042  BRP44  brain protein 44  C047R024  111  Probe  Gene Symbol  Gene.Description  C157R048  GSTA4  glutathione  s-transferase  alpha-4 C028R145  HSBP1  heat shock factor binding protein 1  C013R125  GPX4  glutathione  peroxidase  (phospholipid  4  hydroperoxi-  dase) C188R030  EIF3K  eukaryotic translation initiation factor 3 subunit k  C245R056  CALM2  calmodulin  C253R148  ZGC:73136  zgc:73136  C048R125  HSD17B12B  hydroxysteroid (17-beta) dehydrogenase 12b  C236R010  NCBP2  nuclear cap binding protein subunit 2, 20kda  C037R152  PFDN2  prefoldin subunit 2  C237R071  UBE2E3  ubiquitin-conjugating enzyme e2 e3  C093R125  DYNLRB2  dynein,  light  chain,  roadblock-type 2 C057R087  112  Probe  Gene Symbol  Gene.Description  C085R156  NDUFA8  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 8 C172R068  PSMB2  proteasome macropain)  (prosome, subunit,  beta  type 2 C131R156 C177R137 C199R161 C108R107 C081R120 C240R044 C238R144  PTP4A2  protein tyrosine phosphatase 4a2  C050R044  ROMO1  protein mgr2 homolog  C085R170  GNG5  guanine nucleotide binding protein (g protein), gamma 5 subunit  C028R072  FUBP3  far upstream element (fuse) binding protein 3  C042R096  NAA38  u6 snrna-associated sm-like protein lsm8  113  Probe  Gene Symbol  Gene.Description  C140R081  Rpl14  chloroplast 50s ribosomal protein l14  C014R116 C059R144  TRA2B  splicing  factor,  arginine/serine-rich 10 C061R053  TIMM8A  mitochondrial import inner membrane translocase subunit tim8 a  C151R132 C173R101  RNF4  ring finger protein 4  HPRT1  hypoxanthine guanine phos-  C112R005 C065R075 C052R053  phoribosyl transferase 1 C156R149  RPL37A-PS1  60s ribosomal protein l37a  ATP5D  atp synthase, h+ transport-  C122R034 C242R044  ing, mitochondrial f1 complex, delta subunit C227R065 C259R108  ATG5  autophagy protein 5  C046R002  BRP44  brain protein 44  114  Probe  Gene Symbol  Gene.Description  C253R073  UQCRC2  ubiquinol-cytochrome c reductase core protein ii  C045R084  EIF3K  eukaryotic translation initiation factor 3 subunit k  C168R042 C058R061  STK19  serine/threonine kinase 19  C082R031  ALDH6A1  aldehyde dehydrogenase family 6, subfamily a1  C129R146  CTNNB1  catenin (cadherin associated protein), beta 1  C164R147  PDRG1  p53 and dna damage regulated 1  C130R026  COX5B  cytochrome c oxidase, subunit vb  C060R151  0610007C21RIK  riken cdna 0610007c21 gene  C218R017  RAP1B  ras related protein 1b  C227R103  MMGT1  transmembrane  protein  32  precursor C255R015  NDUFA1  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 1 C030R162  115  Probe  Gene Symbol  Gene.Description  C057R123  RGS3  regulator of g-protein signalling 3  C230R010 C097R153  MGST3  microsomal  glutathione  s-transferase 3 C082R170  FH  fumarate  hydratase,  mito-  chondrial precursor C192R146  CYB5A  cytochrome b5  C112R065  PPIF  peptidylprolyl isomerase f (cyclophilin f)  C123R086  NDUFB10  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 10, 22kda C038R120 C108R052  MAP1LC3A  microtubule-associated  pro-  tein 1 light chain 3 alpha C216R032  SKP1  s-phase kinase-associated protein 1  C236R113  FARSB  phenylalanine-trna synthetase-like,  beta  sub-  unit C087R021  116  Probe  Gene Symbol  Gene.Description  C257R105  BCKDHB  branched chain ketoacid dehydrogenase e1, beta polypeptide  C160R058  NDUFA3  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 3 C240R028  SPAG7  sperm-associated antigen 7  C006R058  KARS|KARS  lysyl-trna  synthetase|lysyl-  trna synthetase C174R100 C087R061  PPIF  peptidylprolyl isomerase f (cyclophilin f)  C140R084 C080R120  SYAP1  hypothetical protein flj14495  ND3  nadh-ubiquinone oxidoreduc-  C201R084 C191R053 C065R038  tase chain 3 C013R121  SYAP1  hypothetical protein flj14495  SMNDC1  survival motor neuron domain  C066R100 C164R162  containing 1  117  Probe  Gene Symbol  Gene.Description  C051R070  ELOF1  elongation factor 1 homolog (s. cerevisiae)  C039R110  PTBP2  polypyrimidine tract binding protein 2  C098R079 C111R135 C247R052  SUB1  sub1 homolog (s. cerevisiae)  C156R115  BRP44  brain protein 44  C074R079  PSME1  proteasome  (prosome,  macropain)  28  subunit,  alpha C205R059  IDH3A  isocitrate  dehydrogenase  3  (nad+) alpha C197R090  PSME2  proteasome activator subunit 2  C223R090  COPS8  cop9 constitutive photomorphogenic homolog subunit 8 (arabidopsis)  C196R062 C041R107 C097R067  PPIF  peptidylprolyl isomerase f (cyclophilin f)  118  Probe  Gene Symbol  Gene.Description  C140R125  SAP18  sin3-associated  polypeptide,  18kda C192R003 C014R037  MATR3  matrin 3  C035R057  ROMO1  protein mgr2 homolog  C266R096  ATP5G3  atp synthase, h+ transporting, mitochondrial f0 complex, subunit c (subunit 9) isoform 3  C026R137  TMEM85  transmembrane protein 85  C226R144  NDUFB10  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 10, 22kda C071R067  COX3  cytochrome  c  oxidase  polypeptide iii C047R040 C188R012 C172R143  SHFM1  split hand/foot malformation (ectrodactyly) type 1  C152R165  HNRPK  heterogeneous nuclear ribonucleoprotein k  C170R127  SNRNP27  u4/u6.u5 tri-snrnp-associated protein 3  119  Probe  Gene Symbol  Gene.Description  ARPC4  actin related protein 2/3 com-  C034R105 C133R035  plex, subunit 4, 20kda C063R004  PSMB2  proteasome macropain)  (prosome, subunit,  beta  type 2 C194R003  MGST3  microsomal  glutathione  s-transferase 3 C266R118  RPL23A  ribosomal protein l23a  C125R134  EIF1B  eukaryotic translation initiation factor 1b  C154R142  H3F3B  h3 histone, family 3b  C031R155  UQCRH  ubiquinol-cytochrome c reductase hinge protein  C072R042  NDUFB9  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 9, 22kda C168R048  GM3244  nadh  dehydrogenase  [ubiquinone]  1  beta  sub-  complex subunit 4 C117R143  ZC3H15  likely ortholog of mouse immediate early response, erythropoietin 4  120  Probe  Gene Symbol  Gene.Description  RBM45  developmentally  C167R161 C057R150  regulated  rna-binding protein 1 C226R076 C192R039 C224R046  EEF1D  eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)  C162R121  CCNI  cyclin i  C172R066  PSME1  proteasome  (prosome,  macropain)  28  subunit,  alpha C085R147  CPSF5  cleavage and polyadenylation specific factor 5  C190R069  COPB1  coatomer  protein  complex,  subunit beta C227R062  PTP4A2  protein tyrosine phosphatase 4a2  C233R093 C106R121  D8ERTD738E  dna segment, chr 8, erato doi 738, expressed  C103R054  121  Probe  Gene Symbol  Gene.Description  C194R087  DYNLRB2  dynein,  light  chain,  roadblock-type 2 C009R072 C098R134  NUDT2  nudix (nucleoside diphosphate linked moiety x)-type motif 2  C121R113  ARF5  adp-ribosylation factor 1  C176R142  EDF1  endothelial  differentiation-  related factor 1 C180R131 C120R046  H1FX  h1 histone family, member x  H2AFY2  h2a histone family, member  C004R131 C138R004 C259R034  y2 C147R054  ARPC4  actin related protein 2/3 complex, subunit 4, 20kda  C158R090 C152R078 C151R014  PSME1  proteasome macropain)  (prosome, 28  subunit,  alpha C008R112  RpS23|RpS23  ribosomal  protein  s23|ribosomal protein s23  122  Probe  Gene Symbol  Gene.Description  C155R026  AP2S1  adaptor-related protein complex 2, sigma 1 subunit  C036R160  ATP6V1G1  vacuolar proton pump subunit g1  C203R026  TMED2  coated vesicle membrane protein  C132R030  COMMD1  copper metabolism (murr1) domain containing 1  C173R014  TIMM8A  mitochondrial import inner membrane translocase subunit tim8 a  C255R100  NUCB1  nucleobindin 1  C232R143  PCBD1  pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1  C129R020  ACP1  low molecular weight phosphotyrosine  protein  phos-  phatase C154R025  ARHGAP1  rho gtpase activating protein 1  C085R129  WBP2  ww domain binding protein 2  123  Probe  Gene Symbol  Gene.Description  C170R009  EIF3D  eukaryotic translation initiation factor 3, subunit 7 (zeta)  C163R002  ZMAT2  zinc finger matrin-type protein 2  C229R035  LRRFIP2  leucine rich repeat (in flii) interacting protein 2  C132R032  PRDX5  peroxiredoxin 5  C105R080  ALDH9A1A  aldehyde dehydrogenase family 9 member a1-a  C115R071  RPL37A-PS1  60s ribosomal protein l37a  EEF1A1O  elongation  C182R064 C136R056  factor  1-alpha,  oocyte form C191R134  FKBP2  fk506 binding protein 2  C084R122  EDF1  endothelial  differentiation-  related factor 1 C081R098  ATP6V0E1  atpase, h+ transporting, lysosomal 9kda, v0 subunit e  C149R078 C014R084  PCBD1  pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1  124  Probe  Gene Symbol  Gene.Description  C223R147  GNAI2  guanine nucleotide binding protein (g protein), alpha inhibiting activity polypeptide 2  C105R148  HINT1  histidine  triad  nucleotide-  binding protein 1 C083R039  EIF6  integrin beta 4 binding protein  C190R145  ARL2  adp-ribosylation  factor-like  protein 2 C029R020 C254R127  SELS  selenoprotein s  C247R115  CIRBP  cold inducible rna binding protein  C016R165  CCNI  cyclin i  C224R102  DENR  density-regulated protein  C086R120  PPT1  palmitoyl-protein thioesterase 1 (ceroid-lipofuscinosis, neuronal 1, infantile)  C171R129  APOEB  apolipoprotein eb  C087R165  OLA1  gtp-binding protein ptd004  C254R091  PFDN1  prefoldin subunit 1  C137R121  125  Probe  Gene Symbol  Gene.Description  C204R052  ZGC:110255  39s ribosomal protein l51, mitochondrial precursor  C002R137 C207R164  PSME1  proteasome macropain)  (prosome, 28  subunit,  alpha C230R135  ATP6V0C  atpase, h+ transporting, lysosomal 16kda, v0 subunit c  C125R036  EIF6  integrin beta 4 binding protein  C151R140  UQCRH  ubiquinol-cytochrome c reductase hinge protein  C220R027  SRSF3  splicing  factor,  arginine/serine-rich 3 C027R145 C068R083  DENR  density-regulated protein  C151R164  MATR3  matrin 3  C143R037  RAP1B  ras related protein 1b  C252R132  ALDH2  aldehyde dehydrogenase 2  C231R082  MDH1  malate dehydrogenase 1, nad  C153R011  (soluble) C081R082  BRP44  brain protein 44  126  Probe  Gene Symbol  Gene.Description  SAT1  spermidine/spermine  C013R089 C264R134 C130R067  n1-  acetyltransferase C203R043  TIMM17A  translocase of inner mitochondrial membrane 17 homolog a (yeast)  C152R101  UQCRC2  ubiquinol-cytochrome c reductase core protein ii  C248R015  MYL6L  myosin light polypeptide 6  PUF60  fuse-binding  C145R101 C200R104  protein-  interacting repressor C050R121 C057R085 C228R136  Rpl14  chloroplast 50s ribosomal protein l14  C220R031  ACT2  actin,  alpha  sarcom-  eric/cardiac C244R007  EIF3K  eukaryotic translation initiation factor 3 subunit k  C201R089  127  Probe  Gene Symbol  Gene.Description  C230R163  ANP32B  similar to acidic leucine-rich nuclear  phosphoprotein  32  family member b (phapi2 protein)  (silver-stainable  protein ssp29) (acidic protein rich in leucines) C214R157 C172R015  PSMD14  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 14 C108R007  PCBD1  pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1  C090R005 C162R030  ROMO1  protein mgr2 homolog  C061R120  KIAA1143  uncharacterized  protein  kiaa1143 homolog C037R160 C178R167  TBL2  dkfzp434n024 protein  C245R002  UQCRC2  ubiquinol-cytochrome c reductase core protein ii  C067R148  FKBP2  fk506 binding protein 2  128  Probe  Gene Symbol  Gene.Description  UBE2A  ubiquitin-conjugating enzyme  C050R141 C122R106  e2a, rad6 homolog (s. cerevisiae) C028R058  UBE2D2  ubiquitin-conjugating enzyme e2d 2 (ubc4/5 homolog, yeast)  C151R120  NACA  nascent-polypeptideassociated  complex  alpha  polypeptide C235R142  Polr2e  polymerase (rna) ii (dna directed) polypeptide e, 25kda  C205R037  CHCHD3  coiled-coil-helix-coiled-coilhelix  domain  containing  3 C124R157  COX5A  cytochrome c oxidase, subunit va  C162R127 C116R153  WIBG  protein wibg homolog  PSMA1  proteasome  C212R111 C241R003  (prosome,  macropain) subunit,  alpha  type, 1  129  Probe  Gene Symbol  Gene.Description  C075R056  AUH  au rna binding protein/enoylcoenzyme a hydratase  C207R096  BIRC2  baculoviral  iap  repeat-  containing 2 C006R134  SLC25A5  solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5  C125R095  ATP6V1G1  vacuolar proton pump subunit g1  C182R032  PEBP1  phosphatidylethanolaminebinding protein 1  C199R050  MRPS28  mitochondrial ribosomal protein s28  C097R024 C195R038  SOD1  superoxide dismutase 1, soluble  C107R063  MYH9  myosin, heavy polypeptide 9, non-muscle  C215R043  EIF3E  eukaryotic translation initiation factor 3 subunit e  C231R040  RHOA  ras  homolog  gene  family,  member a  130  Probe  Gene Symbol  Gene.Description  C166R086  PSMB6  proteasome macropain)  (prosome, subunit,  beta  type, 6 C104R076  THOC4  tho complex 4  EIF3K  eukaryotic translation initia-  C104R010 C194R046 C214R016 C256R050  tion factor 3 subunit k C227R017  RTN4  reticulon 4  C260R145  PCBD1  pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1  C168R081  HMGB1  high-mobility group box 1  C195R033  ROMO1  protein mgr2 homolog  C150R053  ANXA13  annexin a13  C149R044  CALM2  calmodulin  C178R064  HMGB2  high-mobility group box 2  C109R123 C074R130 C110R040  C112R106  131  Probe  Gene Symbol  Gene.Description  C228R051  EIF1B  eukaryotic translation initiation factor 1b  C099R128  TOMM6  overexpressed breast tumor protein homolog  C135R013  RANBP1  ran binding protein 1  C241R073  DYNLRB2  dynein,  light  chain,  roadblock-type 2 C253R134  BHLHE40  class b basic helix-loop-helix protein 2  C134R054 C038R117 C210R153  SDHB  succinate dehydrogenase complex, subunit b, iron sulfur (ip)  C091R161 C225R106  SEC22BB  sec22, vesicle trafficking protein (s. cerevisiae)-like 1b  C024R150  MINA  myc induced nuclear antigen  C162R048  PPP1CB  protein phosphatase 1, catalytic subunit, beta isoform  C148R009  CNOT3  ccr4-not transcription complex, subunit 3  132  Probe  Gene Symbol  Gene.Description  C021R040  ATP5A1  atp synthase, h+ transporting, mitochondrial f1 complex, alpha subunit, isoform 1  C071R032 C189R117  H3F3B  h3 histone, family 3b  EIF4EBP2  eukaryotic translation initia-  C177R049 C260R043 C066R137  tion factor 4e binding protein 2 C105R149  EIF3H  eukaryotic translation initiation factor 3,  subunit 3  gamma, 40kda C098R075  PNRC1  proline-rich nuclear receptor coactivator 1  C030R169 C063R160  MRPS21  mitochondrial ribosomal protein s21  C228R011  SF3B5  splicing factor 3b, subunit 5, 10kda  C209R156 C252R027  COPS7A  cop9  signalosome  complex  subunit 7a  133  Probe  Gene Symbol  Gene.Description  C217R048  DAD1  defender against cell death 1  C163R129  COPG2  coatomer subunit gamma-2  ISOC2  isochorismatase  C099R153 C093R025 C052R044  domain-  containing protein 2, mitochondrial precursor C086R143  SNX12  sorting nexin 12  C118R117  EIF3K  eukaryotic translation initiation factor 3 subunit k  C199R046  LAMTOR3  mitogen-activated protein kinase kinase 1-interacting protein 1  C151R158  RHOA  ras  homolog  gene  family,  member a C249R102 C196R153  EIF1B  eukaryotic translation initiation factor 1b  C088R025  OAZ1  ornithine decarboxylase antizyme 1  C253R096  GSTA4  glutathione  s-transferase  alpha-4 C257R052  POB  partial optokinetic response b  134  Probe  Gene Symbol  Gene.Description  C174R155  PSMD3  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 3 C237R045  SNRNP27  u4/u6.u5 tri-snrnp-associated protein 3  C138R072  ATP6V1G1  vacuolar proton pump subunit g1  C058R034  ATP6V1G1  vacuolar proton pump subunit g1  C140R139  PPT1  palmitoyl-protein thioesterase 1 (ceroid-lipofuscinosis, neuronal 1, infantile)  C028R032 C095R097  THOC4  tho complex 4  C198R158  PSME2  proteasome activator subunit 2  C197R132  RTN4  reticulon 4  C071R010  RPL22L1  ribosomal protein l22 like 1  PSMA6  proteasome  C135R150 C208R149  (prosome,  macropain) subunit,  alpha  type 6 C266R109  135  Probe  Gene Symbol  Gene.Description  TNRC6B  trinucleotide  C248R103 C072R170  repeat-  containing gene 6b protein C142R043 C062R168  TUBA4A  tubulin, alpha 4  C063R073  LITAF  lipopolysaccharide-induced tnf factor  C242R078 C206R074  U2AF1  u2(rnu2) small nuclear rna auxiliary factor 1  C184R121 C124R009  PSMD6  proteasome  (prosome,  macropain)  26s  subunit,  non-atpase, 6 C221R125  PFDN6  prefoldin subunit 6  C248R124  EIF6  integrin beta 4 binding protein  C081R038 C163R113 C207R098  COPE  coatomer  protein  complex,  subunit epsilon C157R127  COX5B  cytochrome c oxidase, subunit vb  136  Probe  Gene Symbol  Gene.Description  C081R016  EIF3H  eukaryotic translation initiation factor 3,  subunit 3  gamma, 40kda C205R044  H1FX  h1 histone family, member x  C167R165  PCBD2  pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 2  C072R099  EML1  echinoderm microtubule associated protein like 1  C167R035  ATP5G3  atp synthase, h+ transporting, mitochondrial f0 complex, subunit c (subunit 9) isoform 3  C126R059  DCUN1D5  dcn1, defective in cullin neddylation 1, domain containing 5 (s. cerevisiae)  C032R049  KIAA1143  uncharacterized  protein  kiaa1143 homolog C016R083 C212R114  FAM50A  family with sequence similarity 50, member a  C130R159  137  Probe  Gene Symbol  Gene.Description  C248R033  BCCIP  brca2 and cdkn1a interacting protein  C250R032 C079R162 C122R140  ZGC:109953  zgc:109953  C196R097  BCCIP  brca2 and cdkn1a interacting protein  C136R032  EIF3H  eukaryotic translation initiation factor 3,  subunit 3  gamma, 40kda C113R018  H3F3B  h3 histone, family 3b  H2AFY2  h2a histone family, member  C024R092 C115R007  y2 C011R030  TIMM17A  translocase of inner mitochondrial membrane 17 homolog a (yeast)  C121R160 C073R083  NDUFB3  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 3, 12kda C212R147  PARP4  poly (adp-ribose) polymerase family, member 4  138  Probe  Gene Symbol  Gene.Description  C091R044  PIGT  phosphatidylinositol  glycan,  class t C008R111  WTAP  wilms tumor 1 associated protein  C264R045 C062R068  LAMTOR3  mitogen-activated protein kinase kinase 1-interacting protein 1  C172R101  ABCB9  atp-binding  cassette,  sub-  family b (mdr/tap), member 9 C231R022  RTN4  reticulon 4  NAA10  n-terminal  C228R105 C228R034  acetyltransferase  complex ard1 subunit homolog a C001R119  EIF3K  eukaryotic translation initiation factor 3 subunit k  C059R158 C083R076 C200R103 C157R044  139  Probe  Gene Symbol  Gene.Description  C252R167  SUPT3H  transcription initiation protein spt3 homolog  C108R018 C251R107  BRP44  brain protein 44  RAD23A  rad23 homolog a (s.  C159R117 C141R073 C168R086  cere-  visiae) C134R130  Mrpl3  mitochondrial ribosomal protein l3  C233R005  H3F3B  h3 histone, family 3b  C010R009  RHOA  ras  homolog  gene  family,  member a C006R153  H3F3B  h3 histone, family 3b  GABARAP  gamma-aminobutyric acid re-  C163R114 C104R158  ceptor associated protein C175R095  CCDC56  coiled-coil domain containing 56  C139R142 C004R142  THOC7  zgc:92711  C173R021  COX7A2  cytochrome c oxidase, subunit viia 2  140  Probe  Gene Symbol  Gene.Description  C141R101  MAGI2  membrane associated guanylate kinase, ww and pdz domain containing 2  C261R159  DDX39  nuclear rna helicase,  decd  variant of dead box family C026R148 C076R150 C253R016 C089R125  NDUFB9  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 9, 22kda C178R127  LANCL1  lanc-like protein 1  C103R151  EIF1B  eukaryotic translation initiation factor 1b  C203R157 C013R016  NENF  neuron derived neurotrophic factor  C005R071 C162R022  COX4NB  neighbor of cox4  C095R087  TUBA4A  tubulin, alpha 4  C208R015  UQCRH  ubiquinol-cytochrome c reductase hinge protein  C072R037  PA2G4  proliferation-associated 2g4  141  Probe  Gene Symbol  Gene.Description  FAF2  ubx domain-containing pro-  C099R015 C153R097 C025R019 C215R117  tein 8 C028R147  F2R  proteinase-activated receptor 1 precursor  C128R084 C080R027  SEPT7  septin-7  C251R142  CIRBP  cold inducible rna binding protein  C226R113  RPL7  ribosomal protein l7  NCBP2  nuclear cap binding protein  C246R066 C124R064 C189R041 C194R014  subunit 2, 20kda C015R144  CALR  calreticulin  C162R085  CCDC43  coiled-coil domain containing 43  C153R150  EIF3F  eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kda  142  Probe  Gene Symbol  Gene.Description  C249R099  ANP32A  acidic (leucine-rich) nuclear phosphoprotein  32  family,  member a C039R164  YPEL5  riken cdna 2310076k21 gene  C112R012  HN1L  dna segment, chr 17, erato doi 441, expressed  C046R039  PPIA  peptidylprolyl isomerase a  EIF3B  eukaryotic translation initia-  C125R105 C178R170  tion factor 3, subunit 9 eta, 116kda C213R139  PSMB5  proteasome macropain)  (prosome, subunit,  beta  type, 5 C045R146  FKBP2  fk506 binding protein 2  C254R114  DDX39  nuclear rna helicase,  decd  variant of dead box family C171R100  PSMC1  peptidase macropain)  (prosome, 26s  subunit,  atpase 1 C067R120 C078R070 C043R128  143  Probe  Gene Symbol  Gene.Description  TUFM  tu translation elongation fac-  C063R054 C120R061  tor, mitochondrial C207R006  HNRNPAB  heterogeneous nuclear ribonucleoprotein a/b  C201R121  PFDN1  prefoldin subunit 1  PSMA1  proteasome  C010R085 C230R102  (prosome,  macropain) subunit,  alpha  type, 1 C187R061 C004R034  PSMA6  proteasome  (prosome,  macropain) subunit,  alpha  type 6 C125R127  EIF1B  eukaryotic translation initiation factor 1b  C022R082  ECHS1  enoyl coenzyme a hydratase, short chain, 1, mitochondrial  C032R144 C206R026  BCCIP  brca2 and cdkn1a interacting protein  C189R161  H3F3B  h3 histone, family 3b  144  Probe  Gene Symbol  Gene.Description  C120R010  PPARD  peroxisome proliferative activated receptor, delta  C036R142 C223R046  STAT1  signal transducer and activator of transcription 1, 91kda  C245R136 C229R042 C050R046  SLIRP  sra stem-loop-interacting rnabinding protein,  mitochon-  drial precursor C184R006  ZGC:153176  uncharacterized  protein  c3orf60 homolog C199R129 C067R049  SNRPD1  small nuclear ribonucleoprotein d1 polypeptide 16kda  C238R119  PSME1  proteasome macropain)  (prosome, 28  subunit,  alpha C169R097  SPNB2  spectrin beta 2  145  Probe  Gene Symbol  Gene.Description  C156R042  POLR2K|LOC100046796  polymerase directed)  (rna)  ii  (dna  polypeptide  k,  7.0kda|dna-directed rna polymerases i, ii, and iii subunit rpabc4 C205R125  COX7C|LOC100048613  cytochrome c oxidase, subunit viic|cytochrome c oxidase subunit 7c, mitochondrial precursor  C237R026 C242R169  PELO  pelota homolog (drosophila)  C186R094  PPP2CB  zgc:77172  C069R147  IFRD2  interferon-related  C134R050  develop-  mental regulator 2 C233R069  HNRNPUL1  heterogeneous nuclear ribonucleoprotein u-like protein 1  C225R135  SPI1  spleen focus forming virus (sffv)  proviral  integration  oncogene spi1 C143R077  H1FX  h1 histone family, member x  C126R073  GDI2  gdp dissociation inhibitor 2  146  Probe  Gene Symbol  Gene.Description  C092R037  EDF1  endothelial  differentiation-  related factor 1 C212R168  FKBP2  fk506 binding protein 2  C052R111  ACTR2  arp2 actin-related protein 2 homolog (yeast)  C020R134 C244R041  CALR  calreticulin  C036R063  SRSF2  splicing  factor,  arginine/serine-rich 2 C114R023  EIF1B  eukaryotic translation initiation factor 1b  C027R002 C142R165 C247R039  MRPS21  mitochondrial ribosomal protein s21  C150R122  CFL2  cofilin 2, muscle  C266R052  CYC1  cytochrome c-1  C226R037  PSMD4  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 4 C039R105  RPL23A  ribosomal protein l23a  147  Probe  Gene Symbol  Gene.Description  C219R144  PSMA5  proteasome  (prosome,  macropain) subunit,  alpha  type 5 C184R009  NDUFA3  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 3 C120R161  HNRNPAB  heterogeneous nuclear ribonucleoprotein a/b  C079R133  GM9531|SET  protein set|set translocation  C232R142  DDT  d-dopachrome tautomerase  ALDH9A1A  aldehyde dehydrogenase fam-  C018R071 C258R069  ily 9 member a1-a C240R005  EIF1AX  eukaryotic translation initiation factor 1a, x-linked  C087R062  MID1IP1  mid1 interacting protein 1 (gastrulation specific g12-like (zebrafish))  C079R104 C006R026  HSPE1  heat shock 10kda protein 1 (chaperonin 10)  C017R107 C168R115  148  Probe  Gene Symbol  Gene.Description  SNX3  sorting nexin 3  ATP6V1G1  vacuolar proton pump subunit  C219R132 C166R169 C219R116 C051R101 C186R152 C227R084 C225R040  g1 C023R002  DDX21  dead  (asp-glu-ala-asp)  box  polypeptide 21 C131R110  CSDE1  cold shock domain containing e1, rna-binding  C116R091  CCT5  chaperonin containing tcp1, subunit 5 (epsilon)  C231R021  ARPC4  actin related protein 2/3 complex, subunit 4, 20kda  C042R140 C070R050  UBE2D2  ubiquitin-conjugating enzyme e2d 2 (ubc4/5 homolog, yeast)  C006R043  TMEM50A  transmembrane protein 50a  C191R142  EIF1B  eukaryotic translation initiation factor 1b  C120R111  149  Probe  Gene Symbol  Gene.Description  C163R039  NDUFA1  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 1 C223R064 C003R057 C140R143 C242R113  DCUN1D5  dcn1, defective in cullin neddylation 1, domain containing 5 (s. cerevisiae)  C171R117 C043R081  CUL3  cullin 3  C141R097  DERL1  der1-like  domain  family,  member 1 C078R086  CIRBP  cold inducible rna binding protein  C178R032 C196R125  PSMA6  proteasome  (prosome,  macropain) subunit,  alpha  type 6 C255R069  CIRBP  cold inducible rna binding protein  C143R090  TXNRD3  thioredoxin reductase 3  C063R151  150  Probe  Gene Symbol  Gene.Description  C244R044  RPL7  ribosomal protein l7  C030R074  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 6, 17kda C241R061 C183R005  EIF2S2  eukaryotic translation initiation factor 2, subunit 2 (beta)  C111R155  EIF2S3  eukaryotic translation initiation factor 2,  subunit 3  gamma, 52kda C167R039 C032R112  TMEM50A  transmembrane protein 50a  C075R077  MRPS14  mitochondrial ribosomal protein s14  C069R114 C008R026  DNAJA2  dnaj (hsp40) homolog, subfamily a, member 2  C164R055  TMEM50A  transmembrane protein 50a  C256R084  PSMA6  proteasome  (prosome,  macropain) subunit,  alpha  type 6 C162R091  PSME2  proteasome activator subunit 2  151  Probe  Gene Symbol  Gene.Description  C074R058  CCT2  similar to chaperonin containing tcp1, subunit 2  C086R011  EEF1D  eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)  C152R031 C260R065  ATP6V0C  atpase, h+ transporting, lysosomal 16kda, v0 subunit c  C160R026 C253R167 C002R056 C232R164 C203R088  EIF3M  zgc:63996  C133R084  YWHAE  tyrosine  3-  monooxygenase/tryptophan 5-monooxygenase  activation  protein, epsilon polypeptide C177R096  DDT  d-dopachrome tautomerase  C179R129  DNTTIP2  deoxynucleotidyltransferase terminal-interacting protein 2  C108R022  LRRC47  leucine rich repeat containing 47  152  Probe  Gene Symbol  Gene.Description  C050R032  SRSF7  splicing  factor,  arginine/serine-rich 7 C030R052 C260R106  LAMTOR3  mitogen-activated protein kinase kinase 1-interacting protein 1  C048R097  TMEM50A  transmembrane protein 50a  C184R019  FKBP1B  fk506 binding protein 1b  C200R105  SPAG7  sperm-associated antigen 7  PDGFRL  platelet-derived growth factor  C160R114 C099R137  receptor-like C042R032 C151R108  HMGB3  high-mobility group box 3  C134R008  POLD4  dna polymerase subunit delta4  C143R057  FKBP1A  fk506-binding protein 1a  LOC642969|PGAM1  phosphoglycerate  C183R154 C064R060 C067R072 C027R151  mutase  1|phosphoglycerate mutase 1  153  Probe  Gene Symbol  Gene.Description  C089R022  RBBP6  retinoblastoma binding protein 6  C239R126 C229R001 C252R010  PSMA6  proteasome  (prosome,  macropain) subunit,  alpha  type 6 C013R118 C151R015  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 6, 17kda C028R053  ERCC5  excision  repair  cross-  complementing rodent repair deficiency,  complementation  group 5 C263R024  PFDN6  prefoldin subunit 6  PSMA6  proteasome  C112R077 C098R064  (prosome,  macropain) subunit,  alpha  type 6 C044R084  TUBB  tubulin, beta  C111R134  154  Probe  Gene Symbol  Gene.Description  C054R142  EEF1D  eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)  C088R123  PSMA6  proteasome  (prosome,  macropain) subunit,  alpha  type 6 C208R032  LOC642969|PGAM1  phosphoglycerate  mutase  1|phosphoglycerate mutase 1 C039R027 C141R148  PFN2  profilin 2  HRSP12  similar to ribonuclease uk114  C251R052 C258R039  (14.5 kda translational inhibitor  protein)  (p14.5)  (uk114 antigen homolog) C069R045  ZGC:113138  trna 2-phosphotransferase 1  C151R099  ARPC1A  actin related protein 2/3 complex, subunit 1a, 41kda  C097R118 C257R151  SRGAP3  slit-robo rho gtpase-activating protein 3  C235R064  FKBP4  fk506-binding protein 4  155  Probe  Gene Symbol  Gene.Description  C073R101  CAPZB  capping protein (actin filament) muscle z-line, beta  C174R106  RPL10  ribosomal protein l10  C232R098  THOC4  tho complex 4  PSME1  proteasome  C135R077 C141R063 C103R052 C211R153  macropain)  (prosome, 28  subunit,  alpha C229R011  KRT8|KRT8  keratin 8|keratin 8  C137R082  ZGC:110255  39s ribosomal protein l51, mitochondrial precursor  C016R065 C081R041  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 6, 17kda C215R109 C201R103 C070R166  TUBB2C  tubulin, beta 2c  C063R016 C194R164  156  Probe  Gene Symbol  Gene.Description  C133R105  MRPS14  mitochondrial ribosomal protein s14  C130R078  TXNDC17  zgc:91920  PPIA  peptidylprolyl isomerase a  TAGLN  transgelin  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  C065R153 C053R028 C067R071 C257R037 C155R143 C262R027 C200R060  beta  sub-  complex, 6, 17kda C070R032  DDT  d-dopachrome tautomerase  C229R062  RPL13  ribosomal protein l13  C107R132  SEC11A  signal peptidase complex catalytic subunit sec11a  C143R085 C144R010  DNAJC19  mitochondrial import inner membrane translocase subunit tim14  C103R161  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 6, 17kda  157  Probe  Gene Symbol  Gene.Description  C123R033  PSMD7  proteasome macropain) non-atpase,  (prosome, 26s  subunit,  7 (mov34 ho-  molog) C058R039  FSTL1  follistatin-like 1  C187R089  SPAG7  sperm-associated antigen 7  C191R013  NDUFB9  nadh  dehydrogenase  (ubiquinone)  1  C241R011  beta  sub-  complex, 9, 22kda C109R066  TIMM17A  translocase of inner mitochondrial membrane 17 homolog a (yeast)  C039R009  H3F3B  h3 histone, family 3b  C238R106  EIF1B  eukaryotic translation initiation factor 1b  C226R156  1110008F13RIK  riken cdna 1110008f13 gene  C257R155  PPP2CB  zgc:77172  C100R168  RBP1  retinol binding protein 1, cellular  C152R022  PSMD4  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 4  158  Probe  Gene Symbol  Gene.Description  C127R109  HMGB3  high-mobility group box 3  BCCIP  brca2 and cdkn1a interacting  C129R044 C179R071  protein C120R140  PDHA1  pyruvate  dehydrogenase  (lipoamide) alpha 1 C118R146  PSMC4  proteasome macropain)  (prosome, 26s  subunit,  atpase, 4 C238R082  ARF4  adp-ribosylation factor 4  C170R005  ACP1  low molecular weight phosphotyrosine  protein  phos-  phatase C098R007  MID1IP1  mid1 interacting protein 1 (gastrulation specific g12-like (zebrafish))  C159R092  SLC25A5  solute carrier family 25 (mitochondrial carrier; adenine nucleotide translocator), member 5  C203R001  NACA  nascent-polypeptideassociated  complex  alpha  polypeptide  159  Probe  Gene Symbol  Gene.Description  C231R028  AHCY-B  adenosylhomocysteinase b  C225R034  ABCF2  atp-binding  C234R032 C206R069  cassette,  family f (gcn20),  sub-  member  2 C006R113  AHSA1  aha1, activator of heat shock 90kda protein atpase homolog 1 (yeast)  C205R159  MID1IP1  mid1 interacting protein 1 (gastrulation specific g12-like (zebrafish))  C012R124  H3F3B  h3 histone, family 3b  C102R094  GTF2H5  general transcription factor iih subunit 5  C016R164 C253R093 C216R027  PGAM1|LOC642969  phosphoglycerate  mutase  1|phosphoglycerate mutase 1 C020R105 C044R125 C244R128 C138R130  160  Probe  Gene Symbol  Gene.Description  C043R115  EEF1B2  eukaryotic translation elongation factor 1 beta 2  C132R009 C233R051 C067R014  TARDBP  expressed sequence c85084  C231R079  TSPAN14  tetraspanin 14  C104R007  ENO1  alpha-enolase  CNP  2,3-cyclic-nucleotide  C154R121 C226R074 C217R091  3-  phosphodiesterase C098R105  ITGB1BP3  integrin beta 1 binding protein 3  C122R043  SRSF6  splicing  factor,  arginine/serine-rich 6 C057R097  PUF60  fuse-binding  protein-  interacting repressor C061R030  SEC11A  signal peptidase complex catalytic subunit sec11a  C093R009  PSMC4  proteasome macropain)  (prosome, 26s  subunit,  atpase, 4 C123R098  161  Probe  Gene Symbol  Gene.Description  C243R024  EIF1B  eukaryotic translation initiation factor 1b  C088R130  EEF1B2  eukaryotic translation elongation factor 1 beta 2  C073R095  DNAJC7  dnaj (hsp40) homolog, subfamily c, member 7  C018R111  PSMC4  proteasome macropain)  (prosome, 26s  subunit,  atpase, 4 C083R022  ITM2C  integral membrane protein 2c  C075R079  SF3A1  splicing factor 3a, subunit 1, 120kda  C086R089  COX5A  cytochrome c oxidase, subunit va  C111R151  HMGB3  high-mobility group box 3  C046R067  SEC11A  signal peptidase complex catalytic subunit sec11a  C010R151  ZGC:86706  zgc:86706  NOP10  h/aca ribonucleoprotein com-  C008R085 C264R080 C264R046  plex subunit 3  162  Probe  Gene Symbol  Gene.Description  C035R092  RAB1A  rab1a, member ras oncogene family  C062R098 C102R142  ITGB1BP3  integrin beta 1 binding protein 3  C007R118  ZNF576  zinc finger protein 576  C039R111  NOLA1  nucleolar protein family a, member 1 (h/aca small nucleolar rnps)  C067R007  LOC100047658|EIF5  eukaryotic translation initiation factor 5|eukaryotic translation initiation factor 5  C070R035  UQCRC1  ubiquinol-cytochrome c reductase core protein 1  C218R034  OAZ2A  ornithine decarboxylase antizyme 2  C129R084  PPARD  peroxisome proliferative activated receptor, delta  C084R022  SSR4  signal  sequence  receptor,  delta C194R116  EIF3D  eukaryotic translation initiation factor 3, subunit 7 (zeta)  163  Probe  Gene Symbol  Gene.Description  C247R107  PSMA1  proteasome  (prosome,  macropain) subunit,  alpha  type, 1 C155R162  BRP44L  brain protein 44-like  C145R117  EDF1  endothelial  differentiation-  related factor 1 C106R118  TMEM14C  transmembrane protein 14c  PA2G4  proliferation-associated 2g4  LOC396473  myristoylated alanine-rich c  C129R163 C237R169 C130R096 C180R106  kinase substrate (marcks) C079R009 C155R122 C212R155  PSMC3  proteasome macropain)  (prosome, 26s  subunit,  atpase 3 C165R160  RPL22L1  ribosomal protein l22 like 1  C138R119  SEC11A  signal peptidase complex catalytic subunit sec11a  C228R107  164  Probe  Gene Symbol  Gene.Description  C188R040  PSMD8  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 8 C148R163  SEC11A  signal peptidase complex catalytic subunit sec11a  C144R137  OLA1  gtp-binding protein ptd004  C015R166  HSP90AB1  heat shock protein 90-beta  C020R123  NDFIP1L  nedd4 family-interacting protein 1  C252R159  ITGB1BP3  integrin beta 1 binding protein 3  C031R014  FKBP3  similar to fk506-binding protein 3 (peptidyl-prolyl cistrans isomerase) (ppiase) (rotamase) (25 kda fkbp) (fkbp25) (rapamycin-selective 25 kda immunophilin)  C105R137 C099R036  RPL10  ribosomal protein l10  C047R088  CCT4  t-complex protein 1 subunit delta  C159R043 C210R118  RPL37A-PS1  60s ribosomal protein l37a  165  Probe  Gene Symbol  Gene.Description  FKBP2  fk506 binding protein 2  C140R016  TUBB2C  tubulin, beta 2c  C168R026  ZGC:109953  zgc:109953  C218R157  TUBA4A  tubulin, alpha 4  C185R145  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  C100R032 C217R083 C186R028 C199R105 C231R063 C049R046  beta  sub-  complex, 6, 17kda C213R066  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 6, 17kda C131R027  IST1  uncharacterized  protein  kiaa0174 homolog C077R158  RPL10  ribosomal protein l10  C156R075  ND4  nadh dehydrogenase subunit 4  C161R041  OLA1  gtp-binding protein ptd004  C108R156  ZGC:123180  upf0446 protein c12orf31 ho-  C039R154  molog  166  Probe  Gene Symbol  Gene.Description  C234R036  SERP1  stress-associated endoplasmic reticulum protein 1  C135R121  RPL7L1  ribosomal protein l7-like 1  C200R080  OLA1  gtp-binding protein ptd004  C224R074  EEF1B2  eukaryotic translation elongation factor 1 beta 2  C096R163  NDUFB6  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 6, 17kda C002R133 C163R051  H3F3B  h3 histone, family 3b  C057R094  EDF1  endothelial  differentiation-  related factor 1 C174R051  UQCR11  cytochrome b-c1 complex subunit 10  C137R022  PSMA3  proteasome alpha 3 subunit isoform 1  C060R095  EIF3D  eukaryotic translation initiation factor 3, subunit 7 (zeta)  C072R141  PHB2  prohibitin 2  C026R066  PSMA6  proteasome  (prosome,  macropain) subunit,  alpha  type 6  167  Probe  Gene Symbol  Gene.Description  C115R073  CUTA  protein cuta homolog precursor  C073R160 C115R047  AHSA1  aha1, activator of heat shock 90kda protein atpase homolog 1 (yeast)  C146R138 C220R090  EIF2S1  eukaryotic translation initiation factor 2, subunit 1 alpha  C201R008  NDUFA8  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 8 C263R146  ATP6V1G1  vacuolar proton pump subunit g1  C181R082  COL6A3  collagen, type vi, alpha 3  C122R151  NDUFS1  nadh (ubiquinone)  dehydrogenase fe-s  protein  1, 75kda (nadh-coenzyme q reductase) C237R140  SRSF3  splicing  factor,  arginine/serine-rich 3  168  Probe  Gene Symbol  Gene.Description  C100R003  SAMM50  sorting and assembly machinery component 50 homolog (s. cerevisiae)  C209R029 C196R003 C118R072  EIF3D  eukaryotic translation initiation factor 3, subunit 7 (zeta)  C045R137  DDT  d-dopachrome tautomerase  C263R085  ARF5  adp-ribosylation factor 1  C135R026  LAMP2  lysosomal membrane glycoprotein 2  C094R113  RPL5  ribosomal protein l5  C048R126  TUBB2C  tubulin, beta 2c  C026R156  UBR5  e3 ubiquitin protein ligase, hect domain containing, 1  C026R108 C119R074 C250R109  UQCRC1  ubiquinol-cytochrome c reductase core protein 1  C040R039  SUB1  sub1 homolog (s. cerevisiae)  C010R080  CCNI  cyclin i  C223R158 C122R169  169  Probe  Gene Symbol  Gene.Description  C227R167  EDF1  endothelial  differentiation-  related factor 1 C176R148  NPM1  nucleophosmin  C001R106  CD81  cd 81 antigen  C146R120  CALU  calumenin  C234R006  MED13  mediator of rna polymerase ii  C168R080  transcription subunit 13 C127R155  MYL9  myosin, light polypeptide 9, regulatory  C125R027  TXNL1  thioredoxin-like 1  RPL37A-PS1  60s ribosomal protein l37a  EIF3D  eukaryotic translation initia-  C098R094 C007R059 C243R094 C054R109  tion factor 3, subunit 7 (zeta) C083R030 C067R022  SUB1  sub1 homolog (s. cerevisiae)  C119R091  UBE2I  ubiquitin-conjugating enzyme e2i  C238R074 C174R128  170  Probe  Gene Symbol  Gene.Description  C262R133  NDUFS2  nadh (ubiquinone)  dehydrogenase fe-s  protein  2, 49kda (nadh-coenzyme q reductase) C105R062  EIF3G  eukaryotic translation initiation factor 3, subunit 4 delta, 44kda  C018R105  METAP2  methionine aminopeptidase 2  ZNF135  zinc finger protein 135 (clone  C256R019 C029R125  phz-17) C164R057  SMAP1  stromal membrane-associated protein 1  C162R122 C031R046 C171R168  NDFIP1L  nedd4 family-interacting protein 1  C114R017  PFN2  profilin 2  C220R016  VPS29  vacuolar protein sorting 29 (s. pombe)  C031R055  171  Probe  Gene Symbol  Gene.Description  C100R151  PSMD8  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 8 C053R169  UQCR11  cytochrome b-c1 complex subunit 10  C017R158  TXNL1  thioredoxin-like 1  C056R029  RAB1A  rab1a, member ras oncogene family  C261R081 C153R165  IRF2BP2B  interferon regulatory factor 2binding protein 2-a  C254R016  SRSF2  splicing  factor,  arginine/serine-rich 2 C263R142 C221R156 C241R050  ID1  inhibitor of dna binding 1, dominant negative helix-loophelix protein  C228R158 C244R062 C088R003 C172R080  TOMM6  overexpressed breast tumor protein homolog  172  Probe  Gene Symbol  Gene.Description  C192R162  MGST3  microsomal  glutathione  s-transferase 3 C016R084  SEC11A  signal peptidase complex catalytic subunit sec11a  C134R064  SEC11A  signal peptidase complex catalytic subunit sec11a  C163R130  PTGES3  prostaglandin e synthase 3 (cytosolic)  C138R051 C182R063  SSR4  signal  sequence  receptor,  delta C022R072  UBFD1  dna segment, chr 7, wayne state  university  128,  ex-  pressed C217R007 C230R162  CFL2  cofilin 2, muscle  LARK  rna-binding protein 4  KLHDC4  kelch domain-containing pro-  C158R164 C058R056 C131R001 C088R109 C034R048  tein 4 C118R070  HABP4  hyaluronan binding protein 4  173  Probe  Gene Symbol  Gene.Description  LAMTOR3  mitogen-activated protein ki-  C063R153 C234R155  nase kinase 1-interacting protein 1 C023R052  HAGH  hydroxyacylglutathione  hy-  drolase C232R155  H1FX  h1 histone family, member x  C229R134  PSMB7  proteasome  (prosome,  macropain)  subunit,  beta  type 7 C252R078  DSC2  desmocollin-2 precursor  C143R059  NACA  nascent-polypeptideassociated  complex  alpha  polypeptide C245R087 C229R161 C113R081  MYL12A  myosin regulatory light chain 2, smooth muscle isoform  C026R161 C010R074  PSMD9  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 9  174  Probe  Gene Symbol  Gene.Description  C057R056  UQCR11  cytochrome b-c1 complex subunit 10  C005R138  SELT2  selenoprotein t2 precursor  C210R111  EIF3CL  eukaryotic translation initiation factor 3 subunit c  C128R060  GSTO1  glutathione  s-transferase  omega 1 C108R162 C231R070  ATP5H  atp synthase, h+ transporting, mitochondrial f0 complex, subunit d  C168R118 C219R106  PSMD1  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 1 C124R096  GSTO1  glutathione  s-transferase  omega 1 C044R080  IPO7  importin 7  C154R039  SMS  spermine synthase  C055R019  TMEM33  transmembrane protein 33  C111R015  EEF1B2  eukaryotic translation elongation factor 1 beta 2  C243R054  175  Probe  Gene Symbol  Gene.Description  C022R048  MATR3  matrin 3  C168R032  SERF2  small edrk-rich factor 2  C168R136  OAZ2A  ornithine decarboxylase an-  C026R147  tizyme 2 C075R132  SRP54B|SRP54A  signal recognition particle 54 kda protein|signal recognition particle 54  C112R072 C013R133  HSP90B1  tumor  rejection  antigen  (gp96) 1 C024R115  EEF1B2  eukaryotic translation elongation factor 1 beta 2  C071R031 C152R125  MYEF2  myelin expression factor 2  C024R057  SERPINB1  serpin  peptidase  inhibitor,  clade b (ovalbumin), member 1 C006R075  HAGH  hydroxyacylglutathione  hy-  drolase C239R098 C119R046  IDH3A  isocitrate  dehydrogenase  3  (nad+) alpha  176  Probe  Gene Symbol  Gene.Description  SERP1  stress-associated endoplasmic  C255R150 C006R016  reticulum protein 1 C093R036 C091R061 C132R167  UBE2I  ubiquitin-conjugating enzyme e2i  C119R083 C240R024  UBFD1  dna segment, chr 7, wayne state  university  128,  ex-  pressed C213R106 C066R085  PPIB  peptidylprolyl  isomerase  b  (cyclophilin b) C073R142  AZIN1  antizyme inhibitor 1  C113R145  SUB1  sub1 homolog (s. cerevisiae)  C044R157  CHST12  carbohydrate sulfotransferase 12  C234R159 C220R100  UQCR11  cytochrome b-c1 complex subunit 10  C093R141  TUBA1C  tubulin, alpha 1 (testis specific)  177  Probe  Gene Symbol  Gene.Description  C216R116  MAGI2  membrane associated guanylate kinase, ww and pdz domain containing 2  C264R093  EEF1D  eukaryotic translation elongation factor 1 delta (guanine nucleotide exchange protein)  C107R011  NARS  asparaginyl-trna synthetase  C133R075  ITGB1BP3  integrin beta 1 binding protein 3  C086R114  STAMBPA  stam-binding protein-like  C042R058  COX6B1  riken cdna 2010000g05 gene  C116R147  GSTM3  glutathione s-transferase m3 (brain)  C079R161  RCC2  protein rcc2 homolog  C213R030  EIF3G  eukaryotic translation initiation factor 3, subunit 4 delta, 44kda  C051R157  RPS27  ribosomal protein s27  C055R118  EIF3D  eukaryotic translation initiation factor 3, subunit 7 (zeta)  C110R161 C013R044  RDBP  zgc:92496  C262R127  SERINC1  serine incorporator 1  178  Probe  Gene Symbol  Gene.Description  C119R067  RPL10  ribosomal protein l10  C130R100  CCT4  t-complex protein 1 subunit delta  C110R155  PFDN1  prefoldin subunit 1  C071R145  EIF3H  eukaryotic translation initiation factor 3,  subunit 3  gamma, 40kda C084R027  BRP44L  brain protein 44-like  C016R047  SNRPD2  small nuclear ribonucleoprotein d2 polypeptide 16.5kda  C231R151  RPL10  ribosomal protein l10  C191R018  H2AFZ  histone h2a.z  C206R132  SEC11A  signal peptidase complex cat-  C247R004  alytic subunit sec11a C083R008 C192R036 C106R015 C028R046  SUB1  sub1 homolog (s. cerevisiae)  C244R150  XBP1  x-box binding protein 1  BIRC6  baculoviral  C239R001 C048R092  iap  repeat-  containing 6 (apollon)  179  Probe  Gene Symbol  Gene.Description  C210R084  AHCY-B  adenosylhomocysteinase b  C101R055  PHB  prohibitin  C219R008  RPL10  ribosomal protein l10  PPA1  pyrophosphatase (inorganic)  C126R155 C168R121  1 C194R095 C161R080 C226R143  PSMD9  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 9 C258R106  TIAL1  tia1  cytotoxic  associated  granule-  rna  binding  protein-like 1 C234R097 C049R102 C233R028  PCBD1  pterin 4 alpha carbinolamine dehydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1  C030R003  NDFIP1L  nedd4 family-interacting protein 1  C116R096  RPL22L1  ribosomal protein l22 like 1  180  Probe  Gene Symbol  Gene.Description  RPL10  ribosomal protein l10  USMG5  upregulated during skeletal  C042R130 C244R028 C028R096 C109R039  muscle growth 5 homolog (mouse) C003R063 C196R166 C191R124  DRG1  developmentally-regulated gtp-binding protein 1  C087R082  MGST3  microsomal  glutathione  s-transferase 3 C061R046  LAPTM4A  lysosomal-associated  trans-  membrane protein 4a C045R135  COX7A2L  cytochrome c oxidase subunit viia polypeptide 2 like  C127R132  RPL10  ribosomal protein l10  C027R063  CCT6A  chaperonin containing tcp1, subunit 6a (zeta 1)  C056R135  RPS3  ribosomal protein s3  C180R137  MORF4L1  mortality factor 4 like 1  C012R026  MFN2  mitofusin 2  181  Probe  Gene Symbol  Gene.Description  C162R106  FAM199X  uncharacterized protein cxorf39 homolog  C036R042  ARPC2  actin related protein 2/3 complex, subunit 2, 34kda  C183R003  CHST12  carbohydrate sulfotransferase 12  C051R086  PSMC4  proteasome macropain)  (prosome, 26s  subunit,  atpase, 4 C116R052 C073R046  CCT6A  chaperonin containing tcp1, subunit 6a (zeta 1)  C115R011 C030R039 C188R027 C018R084  BRP44L  brain protein 44-like  C050R035  SELT2  selenoprotein t2 precursor  C121R128  TUBA1C  tubulin, alpha 1 (testis spe-  C040R096 C038R121  cific) C213R118  ECU02 0740I  ubiquitin precursor  C007R160  PFN2  profilin 2  182  Probe  Gene Symbol  Gene.Description  C004R156  PSMA5  proteasome  (prosome,  macropain) subunit,  alpha  type 5 C044R015  HSP90B1  tumor  rejection  antigen  (gp96) 1 C072R039 C135R094  ATP6V0C  atpase, h+ transporting, lysosomal 16kda, v0 subunit c  C199R155  SAP18  sin3-associated  polypeptide,  18kda C201R115 C221R144  COX7A2  cytochrome c oxidase, subunit viia 2  C052R011 C244R085 C189R102  EIF3E  eukaryotic translation initiation factor 3 subunit e  C124R017  COX7A2L  cytochrome c oxidase subunit viia polypeptide 2 like  C091R129  SNRPD2  small nuclear ribonucleoprotein d2 polypeptide 16.5kda  C140R079  ACADM  acetyl-coenzyme a dehydrogenase, medium chain  183  Probe  Gene Symbol  Gene.Description  C041R034  HARS  histidyl-trna synthetase  C065R024  PDIA6  protein disulfide isomerase associated 6  C088R071  SEC61B  sec61 beta subunit  C227R059  HIST2H2AB  histone h2a.x  C157R085  AKR1B1  aldo-keto reductase family 1, member b1 (aldose reductase)  C106R013  EWSR1  ewing sarcoma breakpoint region 1  C255R075  SEC11A  signal peptidase complex catalytic subunit sec11a  C096R155 C030R132  RPL19-A  ribosomal protein l19  C098R017  GTF2H5  general transcription factor iih subunit 5  C175R105  CUL1  cullin 1  C031R152  COX7A2L  cytochrome c oxidase subunit viia polypeptide 2 like  C266R104 C234R125  UBE2D4  ubiquitin-conjugating enzyme e2d 4 (putative)  C177R091  CUTA  protein cuta homolog precursor  184  Probe  Gene Symbol  Gene.Description  C175R060  SF4  splicing factor 4  C189R049  NDUFS4  nadh (ubiquinone)  dehydrogenase fe-s  protein  4 C117R155 C238R108  HAGH  hydroxyacylglutathione  hy-  drolase C086R126  ZNF345  zinc finger protein 345  C006R145  ATP5C1  atp synthase, h+ transporting, mitochondrial f1 complex, gamma polypeptide 1  C231R083  NDFIP2  nedd4 family interacting protein 2  C163R103 C224R161  NPC2  niemann-pick disease, type c2  C111R141  RPL10  ribosomal protein l10  C194R062  NDUFS1  nadh (ubiquinone)  dehydrogenase fe-s  protein  1, 75kda (nadh-coenzyme q reductase) C129R139 C193R153 C018R070  XRCC4  dna-repair protein xrcc4  185  Probe  Gene Symbol  Gene.Description  C084R033  OLA1  gtp-binding protein ptd004  MDH1  malate dehydrogenase 1, nad  C233R121 C216R103  (soluble) C098R083 C134R137  CD63  cd63 antigen  CIRBP  cold inducible rna binding  C146R019 C202R159 C177R139 C241R026  protein C115R114 C187R088  GPX1  glutathione peroxidase 1  C261R100  DDX19A  atp-dependent rna helicase ddx19a  C106R071  MYL12A  myosin regulatory light chain 2, smooth muscle isoform  C187R160  HSP90B1  tumor  rejection  antigen  (gp96) 1 C229R016  MYL12A  myosin regulatory light chain 2, smooth muscle isoform  C085R030  MSRA  methionine sulfoxide reductase a  186  Probe  Gene Symbol  Gene.Description  C161R068  MFSD3  major facilitator superfamily domain-containing protein 3  C179R058  WBP2  ww domain binding protein 2  C254R051  GSTO1  glutathione  s-transferase  omega 1 C089R089  EIF3E  eukaryotic translation initiation factor 3 subunit e  C194R126 C235R168 C210R055  NDFIP1L  nedd4 family-interacting protein 1  C015R098  ATP5D  atp synthase, h+ transporting, mitochondrial f1 complex, delta subunit  C063R124  NPC2  niemann-pick disease, type c2  C112R092  GNB2L1  guanine nucleotide binding protein  (g  protein),  beta  polypeptide 2-like 1 C052R149  RPL10  ribosomal protein l10  C215R149  UQCRC1  ubiquinol-cytochrome c reductase core protein 1  C099R045  TSPAN14  tetraspanin 14  187  Probe  Gene Symbol  Gene.Description  C225R108  PTBP1  polypyrimidine tract-binding protein 1  C067R112  BRP44L  brain protein 44-like  C175R054  SAP18  sin3-associated  polypeptide,  18kda C116R161 C133R048  EIF3M  zgc:63996  PECI  peroxisomal  C117R104 C200R090  d3,d2-enoyl-coa  isomerase C129R078  HSP90B1  tumor  rejection  antigen  (gp96) 1 C088R167 C077R145  GIMAP7  gtpase, imap family member 7  C241R029  NACA  nascent-polypeptideassociated  complex  alpha  polypeptide C176R160 C212R008  STRAP  serine/threonine kinase receptor associated protein  C103R003 C235R170  188  Probe  Gene Symbol  Gene.Description  C101R101  EIF3D  eukaryotic translation initiation factor 3, subunit 7 (zeta)  C167R130 C249R032  COX5A  cytochrome c oxidase, subunit va  C195R107  RPN2  ribophorin ii  C027R070  HEBP2  heme binding protein 2  C133R073  ITGB1  integrin beta-1 precursor  PSMC4  proteasome  C086R087 C109R021  C030R022 C186R008  macropain)  (prosome, 26s  subunit,  atpase, 4 C011R014 C163R068  SAP18  sin3-associated  polypeptide,  18kda C115R041 C030R137 C256R066  SEC61AL1  protein  transport  protein  sec61 subunit alpha isoform a C067R149  SAP18  sin3-associated  polypeptide,  18kda  189  Probe  Gene Symbol  Gene.Description  ATP6V0C  atpase, h+ transporting, lyso-  C067R034 C230R155 C122R057  somal 16kda, v0 subunit c C091R084  BRP44L  brain protein 44-like  C252R007  GOT1  glutamic-oxaloacetic transaminase (aspartate  1,  soluble  aminotransferase  1) C130R076  GSTO1  glutathione  s-transferase  omega 1 C226R053  BRP44L  brain protein 44-like  C112R096  TOP1  topoisomerase (dna) i  C048R012  ANXA11  annexin a11  C077R144  ATP5C1  atp synthase, h+ transporting, mitochondrial f1 complex, gamma polypeptide 1  C265R029  RPL19-A  ribosomal protein l19  RBBP6  retinoblastoma binding pro-  C207R084 C125R062  tein 6 C074R158  190  Probe  Gene Symbol  Gene.Description  C078R158  KRTCAP2  keratinocyte associated protein 2  C174R030 C164R023 C230R151  COX7A2L  cytochrome c oxidase subunit viia polypeptide 2 like  C129R015  ANXA5  annexin a5  C116R037  PSMD9  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 9 C244R161  SEC61B  sec61 beta subunit  C232R156  DHX15  deah  (asp-glu-ala-his)  box  polypeptide 15 C264R081 C263R074 C153R135 C108R103  HNRNPA0  heterogeneous nuclear ribonucleoprotein a0  C121R154  SEC61B  sec61 beta subunit  C194R149  BRP44L  brain protein 44-like  C035R037 C150R137 C136R156  191  Probe  Gene Symbol  Gene.Description  C088R151  COL6A1  procollagen, type vi, alpha 1  C259R145  UQCR11  cytochrome b-c1 complex sub-  C050R114 C031R159  unit 10 C019R051  UBE2D4  ubiquitin-conjugating enzyme e2d 4 (putative)  C087R071  TALDO1  transaldolase 1  C058R067  TAF10  taf10 rna polymerase ii, tata box binding protein (tbp)associated factor, 30kda  C261R051  SET  set translocation  C053R107  SEC61B  sec61 beta subunit  C047R170  H1F0  h1 histone family, member 0  C240R056  MYL12A  myosin regulatory light chain  C131R018  2, smooth muscle isoform C162R016  BNIP3L  bcl2/adenovirus e1b 19kda interacting protein 3-like  C019R056  COL6A3  collagen, type vi, alpha 3  UBE2D4  ubiquitin-conjugating enzyme  C028R113 C189R074  e2d 4 (putative)  192  Probe  Gene Symbol  Gene.Description  C217R033  CD63  cd63 antigen  C054R155  HADH  l-3-hydroxyacyl-coenzyme  C116R087  a  dehydrogenase, short chain C180R069  NDUFB10  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 10, 22kda C114R069  ATP5C1  atp synthase, h+ transporting, mitochondrial f1 complex, gamma polypeptide 1  C065R021 C162R125  HSP90B1  tumor  rejection  antigen  (gp96) 1 C232R147 C038R101 C203R031  TUBA4A  tubulin, alpha 4  C207R034  TPT1  tumor  protein,  translationally-controlled 1 C094R136  BRP44L  brain protein 44-like  C117R158  BRP44L  brain protein 44-like  C126R116  TSPAN14  tetraspanin 14  193  Probe  Gene Symbol  Gene.Description  C255R107  UBE2D4  ubiquitin-conjugating enzyme e2d 4 (putative)  C143R125  STK17A  serine/threonine kinase 17a (apoptosis-inducing)  C043R042 C078R136  RB1CC1  rb1-inducible coiled-coil 1  C131R047  HADH  l-3-hydroxyacyl-coenzyme  a  dehydrogenase, short chain C142R118  BRP44L  brain protein 44-like  C090R148  TUBB2C  tubulin, beta 2c  C194R105  ARPC3  actin related protein 2/3 com-  C256R116 C026R129 C124R053 C037R135  plex, subunit 3, 21kda C181R114  HNRNPAB  heterogeneous nuclear ribonucleoprotein a/b  C075R067  RAB10  ras-related protein rab-10  C176R107  PHB2  prohibitin 2  C059R156  ADAM8  adam metallopeptidase domain 8  194  Probe  Gene Symbol  Gene.Description  C046R098  NAA15  nmda receptor-regulated protein 1  C094R079 C181R033 C260R063  HADHA  hydroxyacyl-coenzyme  a  dehydrogenase/3-ketoacylcoenzyme a thiolase/enoylcoenzyme a hydratase (trifunctional  protein),  alpha  subunit C238R051  GHITM  growth  hormone  inducible  transmembrane protein C066R015 C165R159  TPT1  tumor  protein,  translationally-controlled 1 C264R017 C007R083  HSC70  heat shock cognate 71 kda protein  C237R136  ATP6V0C  atpase, h+ transporting, lysosomal 16kda, v0 subunit c  C027R016 C166R079  CD63  cd63 antigen  195  Probe  Gene Symbol  Gene.Description  C233R032  ITM2B  integral membrane protein 2b  C215R056  EIF3K  eukaryotic translation initiation factor 3 subunit k  C251R078  GLUL  glutamate-ammonia  ligase  (glutamine synthetase) C057R098 C005R151 C196R123 C191R106 C011R118 C206R045  NPC2  niemann-pick disease, type c2  ATOX1  copper  C200R094 C029R124  transport  protein  atox1 C048R155 C095R042 C037R168 C241R146  NFKBIE  nuclear factor of kappa light polypeptide gene enhancer in b-cells inhibitor, epsilon  C200R065  TRIP12  thyroid hormone receptor interactor 12  C192R106  LACZ  beta-galactosidase  196  Probe  Gene Symbol  Gene.Description  C150R045  CD63  cd63 antigen  C102R100  PDIA6  protein disulfide isomerase as-  C063R126  sociated 6 C010R027  SI:CH211-216L23.1  zinc finger protein 423  C169R072  GHITM  growth  hormone  inducible  transmembrane protein C115R013 C081R167  RPS3  ribosomal protein s3  PTGES3  prostaglandin e synthase 3  C203R047 C187R075  (cytosolic) C009R049  PTPN23  tyrosine-protein phosphatase non-receptor type 23  C097R022  TPT1  tumor  protein,  translationally-controlled 1 C014R020  H1F0  h1 histone family, member 0  C094R008  NDUFB10  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 10, 22kda C173R165  EIF3K  eukaryotic translation initiation factor 3 subunit k  197  Probe  Gene Symbol  Gene.Description  C081R059  PMP22  peripheral myelin protein 22  C200R050  TPT1  tumor  C042R109  protein,  translationally-controlled 1 C055R002  SYNCRIP  ns1-associated protein 1-like  C025R073  EIF3K  eukaryotic translation initiation factor 3 subunit k  C156R021  BRP44L  brain protein 44-like  SI:CH211-132P20.4  sodium-coupled  C192R037 C228R139  neutral  amino acid transporter 2 C167R091  TPT1  tumor  protein,  translationally-controlled 1 C262R043  BRP44L  brain protein 44-like  C179R003  SAFB2  scaffold attachment factor b2  C047R025  CTNND1  catenin (cadherin-associated protein), delta 1  C258R049  HNRPK  heterogeneous nuclear ribonucleoprotein k  C242R092  BRP44L  brain protein 44-like  198  Probe  Gene Symbol  Gene.Description  C106R109  MMADHC  uncharacterized  protein  c2orf25, mitochondrial precursor C207R142  SET  set translocation  C009R055  PLAC8L1  plac8-like protein 1  C069R078  KRTCAP2  keratinocyte associated protein 2  C006R020  ITM2B  integral membrane protein 2b  C245R007  RPL37A-PS1  60s ribosomal protein l37a  C245R130  PCOLCE  procollagen c-proteinase enhancer protein  C055R097 C127R038  EIF3D  eukaryotic translation initiation factor 3, subunit 7 (zeta)  C101R006  HAGH  hydroxyacylglutathione  hy-  drolase C178R012  ECM1  extracellular matrix protein 1  C218R155  SNRPD2  small nuclear ribonucleoprotein d2 polypeptide 16.5kda  C216R079  SET  set translocation  C118R104  EIF4E3  eukaryotic translation initiation factor 4e type 3  C102R083  199  Probe  Gene Symbol  Gene.Description  C207R030  BRP44L  brain protein 44-like  C061R101  EIF3K  eukaryotic translation initia-  C057R157  tion factor 3 subunit k C115R059 C185R096  EIF3K  eukaryotic translation initiation factor 3 subunit k  C258R094  DBI  diazepam binding inhibitor (gaba  receptor  acyl-coenzyme  modulator, a  binding  protein) C245R018  ARPC1B  actin related protein 2/3 complex, subunit 1b, 41kda  C020R029  ANKHD1  ankyrin repeat and kh domain containing 1  C029R039  QARS  glutaminyl-trna synthetase  PHTF1  putative homeodomain tran-  C162R051 C151R041 C040R141  scription factor 1 C089R054 C121R019  200  Probe  Gene Symbol  Gene.Description  C202R103  HUWE1  hect, uba and wwe domain containing 1  C006R027  NPC2  niemann-pick disease, type c2  cnot1  ccr4-not transcription com-  C154R005 C087R037  plex, subunit 1 C112R017  EIF3K  eukaryotic translation initiation factor 3 subunit k  C080R040 C011R010  ZNF470  flj26175 protein  C242R058  PPDPF  upf0362 protein c20orf149 homolog  C173R070  YTHDC1  yth domain-containing protein 1  C177R093  VCP  valosin-containing protein  C059R107  EIF3K  eukaryotic translation initiation factor 3 subunit k  C177R005  ATP5G3  atp synthase, h+ transporting, mitochondrial f0 complex, subunit c (subunit 9) isoform 3  C236R130  201  Probe  Gene Symbol  Gene.Description  C018R038  GGH  gamma-glutamyl (conjugase,  hydrolase  folylpolygam-  maglutamyl hydrolase) C154R099  PGD  phosphogluconate dehydrogenase  C202R055  EIF3K  eukaryotic translation initiation factor 3 subunit k  C064R169  SERINC1  serine incorporator 1  ATP5C1  atp synthase, h+ transport-  C115R101 C117R046  ing, mitochondrial f1 complex, gamma polypeptide 1 C237R126  Cotl1  coactosin-like  1  (dic-  tyostelium) C226R107 C006R065  ABCF2  atp-binding  cassette,  family f (gcn20),  sub-  member  2 C060R080  W07G4.4  putative  aminopeptidase  w07g4.4 in chromosome v C120R110  ARPC3  actin related protein 2/3 complex, subunit 3, 21kda  202  Probe  Gene Symbol  Gene.Description  C215R055  EARS2  probable glutamyl-trna synthetase, mitochondrial precursor  C235R130  TUBB2C  tubulin, beta 2c  SBCC  dna double-strand break re-  C171R084 C183R103  pair rad50 atpase C129R079 C141R129  SF3B5  splicing factor 3b, subunit 5, 10kda  C119R146 C210R126 C015R073 C088R077 C253R125  CNBP  similar to cellular nucleic acid binding protein 1  C122R061 C221R094 C031R072 C037R170  ETFA  electron-transfer-flavoprotein, alpha polypeptide (glutaric aciduria ii)  C183R051  CRIP  cysteine-rich protein 1  203  Probe  Gene Symbol  Gene.Description  C171R046  SRSF2  splicing  factor,  arginine/serine-rich 2 C109R050 C210R034  RBM17  rna binding motif protein 17  C162R065  NPC2  niemann-pick disease, type c2  C218R035  TPRX1  tetra-peptide repeat homeobox protein 1  C118R136  CD63  cd63 antigen  C074R075  EIF3K  eukaryotic translation initiation factor 3 subunit k  C148R102 C232R032  NACA  nascent-polypeptideassociated  complex  alpha  polypeptide C243R047  ITM2B  integral membrane protein 2b  C036R065  ITGB1BP3  integrin beta 1 binding protein 3  C037R080 C080R015  REEP5  receptor accessory protein 5  C003R039  ETFA  electron-transfer-flavoprotein, alpha polypeptide (glutaric aciduria ii)  C214R039  204  Probe  Gene Symbol  Gene.Description  C121R090  EIF4G2  eukaryotic translation initiation factor 4 gamma, 2  C126R075  TPT1  tumor  protein,  translationally-controlled 1 C016R113  NDUFB5  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 5, 16kda C230R070 C082R126 C191R164 C124R083  RPLP0  ribosomal protein, large, p0  LOC420557  protein fam133  TPT1  tumor  C125R048 C057R066 C030R110 C243R089 C086R090  protein,  translationally-controlled 1 C144R006  CTSF  cathepsin f  C125R125  EIF4E  eif-4e protein  205  Probe  Gene Symbol  Gene.Description  C092R123  NDUFB5  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 5, 16kda C164R116 C116R071  CAMK2G  calcium/calmodulindependent  protein  kinase  ii gamma C234R004 C244R160  NAP1L1|LOC540136  nucleosome assembly protein 1-like 1|nucleosome assembly protein 1-like 1  C062R114  TUBA1A  tubulin, alpha 1  C086R091  ITGB1  integrin beta-1 precursor  C006R125  EIF3K  eukaryotic translation initia-  C099R125  tion factor 3 subunit k C208R002  ARPC3  actin related protein 2/3 complex, subunit 3, 21kda  C052R159  SEPW1  selenoprotein w, 1  TUBB2C  tubulin, beta 2c  C261R101 C216R015 C010R035 C068R025  206  Probe  Gene Symbol  Gene.Description  C254R012  NPC2  niemann-pick disease, type c2  C165R136  SPARC  secreted  protein,  acidic,  cysteine-rich [osteonectin] C155R164  SEPW1  selenoprotein w, 1  C179R169  TPT1  tumor  protein,  translationally-controlled 1 C065R132  MTR  methionine synthase  C204R162  TPT1  tumor  protein,  translationally-controlled 1 C031R098 C010R065  NHP2L1-A  nhp2-like protein 1  H1F0  h1 histone family, member 0  C115R104  TPP2  tripeptidyl peptidase ii  C016R163  ATP5A1  atp synthase, h+ transport-  C247R073 C021R027 C025R024  ing, mitochondrial f1 complex, alpha subunit, isoform 1 C128R033  March7  membrane-associated ring finger (c3hc4) 7  C036R054  TUBA1A  tubulin, alpha 1  207  Probe  Gene Symbol  Gene.Description  NDUFB7  nadh  dehydrogenase  (ubiquinone)  1  C192R059 C250R044 C095R065  beta  sub-  complex, 7, 18kda C095R170 C155R110  BTN1A1  butyrophilin,  subfamily  1,  member a1 C253R063 C083R113  ATPIF1  atpase inhibitor precursor  C256R031  RNF111  ring finger 111  C070R078  REEP5  receptor accessory protein 5  C262R024  EIF3D  eukaryotic translation initia-  C124R012  tion factor 3, subunit 7 (zeta) C251R054  W07G4.4  putative  aminopeptidase  w07g4.4 in chromosome v C109R136 C160R035  HSPA5  heat shock 70kda protein 5 (glucose-regulated protein, 78kda)  C075R026  ATPIF1  atpase inhibitor precursor  C059R056  HECTD1  hect domain containing 1  208  Probe  Gene Symbol  Gene.Description  C258R041  NDUFB5  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 5, 16kda C126R097  Hspd1  chaperonin  C084R081  LOC540136|NAP1L1  nucleosome assembly protein 1-like 1|nucleosome assembly protein 1-like 1  C044R152 C094R069 C158R059 C028R155  SEC61B  sec61 beta subunit  C088R119  W07G4.4  putative  aminopeptidase  w07g4.4 in chromosome v C146R059 C026R028  CEBPD  ccaat/enhancer binding protein (c/ebp), delta  C137R006 C127R106  NDUFB7  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 7, 18kda C062R036  REEP5  receptor accessory protein 5  ATPIF1  atpase inhibitor precursor  C212R066 C234R127  209  Probe  Gene Symbol  Gene.Description  C108R035  PYGL  glycogen phosphorylase, liver form  C143R168  LOC540136|NAP1L1  nucleosome assembly protein 1-like 1|nucleosome assembly protein 1-like 1  C204R093 C047R142 C046R030  ST6GALNAC5  alpha-nacetylgalactosaminide alpha2,6-sialyltransferase 5  C107R130  CIRBP  cold inducible rna binding protein  C204R039  TOB1  transducer of erbb2, 1  SERBP1  serpine1 mrna binding protein  C223R124 C245R139  1 C258R033  NDUFB5  nadh  dehydrogenase  (ubiquinone)  1  beta  sub-  complex, 5, 16kda C037R094 C151R081  RPL19-A  ribosomal protein l19  C115R025  MYCBP2  probable e3 ubiquitin-protein ligase mycbp2  210  Probe  Gene Symbol  Gene.Description  C211R001  CALM2  calmodulin  C099R063  IMPA1  inositol monophosphatase  C259R070  REEP5  receptor accessory protein 5  C046R005  ANXA5  annexin a5  C189R030  NAP1L1|LOC540136  nucleosome assembly protein  C196R045 C053R093 C210R131 C034R064  1-like 1|nucleosome assembly protein 1-like 1 C127R121  CCT4  t-complex protein 1 subunit delta  C140R047 C015R006  ATPIF1  atpase inhibitor precursor  C037R132  HMGB2  high-mobility group box 2  C136R135  EIF4G3  eukaryotic translation initiation factor 4 gamma, 3  C085R045 C005R124  ITGB1BP3  integrin beta 1 binding protein 3  C227R132  ATPIF1  atpase inhibitor precursor  C238R057  211  Probe  Gene Symbol  Gene.Description  EDF1  endothelial  C186R121 C170R061  differentiation-  related factor 1 C092R164 C149R018 C020R077 C177R010  ATPIF1  atpase inhibitor precursor  C022R013  SERBP1  serpine1 mrna binding protein 1  C109R029  MTHFD2  methylenetetrahydrofolate dehydrogenase (nad+ dependent), methenyltetrahydrofolate cyclohydrolase  C071R038  COX1  cytochrome c oxidase subunit 1  C257R069  SQSTM1  sequestosome 1  C241R111  KDM5A  histone demethylase jarid1a  C162R020  ANXA5  annexin a5  C248R102  PSMD2  proteasome macropain)  (prosome, 26s  subunit,  non-atpase, 2 C016R014  212  Probe  Gene Symbol  Gene.Description  C044R161  TCF12  transcription factor 12 (htf4, helix-loop-helix transcription factors 4)  C149R096  KLHL6  kelch-like 6 (drosophila)  C008R032  ANXA5  annexin a5  C257R091  ATPIF1  atpase inhibitor precursor  C036R113  RPL13  ribosomal protein l13  C185R149  CCNL1  cyclin l1  C120R114  NOP56  nucleolar protein 5a  C057R091  IWS1  riken cdna 1700069o15 gene  C138R156  ANXA5  annexin a5  C055R034  H3F3B  h3 histone, family 3b  C158R034  GABARAPL2  gaba(a)  C072R068 C146R049  receptor-associated  protein-like 2 C026R142 C254R146 C069R080  TALDO1  transaldolase 1  C258R108  SEPW1  selenoprotein w, 1  ND4  nadh dehydrogenase subunit 4  C171R056 C018R143 C260R109  213  Probe  Gene Symbol  Gene.Description  C198R089  TKT  transketolase  NPC2  niemann-pick disease, type c2  PPIB  peptidylprolyl  C220R037 C025R153 C266R147 C139R012 C260R034 C119R077 C100R084  isomerase  b  (cyclophilin b) C225R036 C143R005 C166R090 C034R145 C029R119 C156R020  CFL2  cofilin 2, muscle  CALR  calreticulin  SRSF2  splicing  C017R045 C074R127 C223R156 C229R070 C078R152  factor,  arginine/serine-rich 2  214  Probe  Gene Symbol  Gene.Description  C065R100  HSPA5  heat shock 70kda protein 5 (glucose-regulated protein, 78kda)  C218R023  NCOA4  nuclear receptor coactivator 4  C187R068  SRSF2  splicing  factor,  arginine/serine-rich 2 C043R150 C210R016  PCBP2  poly(rc) binding protein 2  HMGB2  high-mobility group box 2  ND5  nadh-ubiquinone oxidoreduc-  C150R142 C142R083 C241R066 C200R117  tase chain 5 C208R034 C113R096  PPIB  peptidylprolyl  isomerase  b  (cyclophilin b) C174R042  HMGB2  high-mobility group box 2  NOP56  nucleolar protein 5a  CFL2  cofilin 2, muscle  C044R128 C120R047 C105R116 C236R070 C154R002  215  Probe  Gene Symbol  Gene.Description  C084R083  SRSF2  splicing  factor,  arginine/serine-rich 2 C105R110 C173R094  PPIB  peptidylprolyl  isomerase  b  isomerase  b  (cyclophilin b) C179R166  PPIB  peptidylprolyl (cyclophilin b)  C243R121  PPARD  peroxisome proliferative activated receptor, delta  C231R004 C250R079 C067R163  RNPS1  rna binding protein s1, serinerich domain  C182R048 C020R092  ANXA2-A  annexin a2-a  ND5  nadh-ubiquinone oxidoreduc-  C161R066 C220R134 C245R142  tase chain 5 C063R096 C154R061 C120R097 C175R090  TRIM25  tripartite motif protein 25  216  Probe  Gene Symbol  Gene.Description  SPAC23A1.17  spac23a1.17 protein  CTSL2  cathepsin l2  TTC7A  tetratricopeptide repeat pro-  C143R068 C074R110 C070R045 C085R103 C149R108 C138R129 C083R108 C151R103 C037R144  tein 7a C189R053  CAHZ  carbonic anhydrase  CAHZ  carbonic anhydrase  C240R142 C104R148 C266R054 C022R034 C021R112 C043R154 C249R017 C265R076 C075R074 C194R002 C168R153 C014R098  217  Probe  Gene Symbol  Gene.Description  C076R068  TRIM25  tripartite motif protein 25  C101R068  RRAGC  ras-related gtp-binding pro-  C141R114  tein c C174R079  SRSF2  splicing  factor,  arginine/serine-rich 2 C120R022  ND1  nadh-ubiquinone oxidoreductase chain 1  C113R073 C154R138 C098R145 C205R034 C215R152  218  Appendix B  Tissue-Specific Probes B.1  Brain-Specific Probes Probe  C001R075  Gene Symbol  p-value  log2 FC  SLMAP  < 2e-50  6.30  Description sarcolemma associated protein  C005R144  < 2e-50  6.60  C006R092  < 2e-50  8.50  C006R139  < 2e-50  3.80  < 2e-50  4.10  C007R134  GLUL  glutamate-ammonia ligase (glutamine synthetase)  C007R138 C009R080  BHLHE22  < 2e-50  3.90  < 2e-50  3.80  class b basic helix-loophelix protein 5  C009R143  PRB1  < 2e-50  3.30  basic salivary prolinerich protein 1 precursor  C010R019  < 2e-50  5.70  C010R104  < 2e-50  5.60 219  Probe  Gene Symbol  p-value  log2 FC  MATR3  < 2e-50  6.20  C011R147  < 2e-50  6.20  C013R128  < 2e-50  7.00  < 2e-50  4.90  C011R128  C014R088  SCN1B  Description matrin 3  sodium  channel,  voltage-gated,  type  i, beta polypeptide C014R101  FEZ1  < 2e-50  7.20  fasciculation and elongation protein zeta 1 (zygin i)  C015R065  < 2e-50  5.50  C016R116  < 2e-50  6.30  C017R054  < 2e-50  4.40  < 2e-50  5.60  C017R125  PFKP  phosphofructokinase, platelet  C018R029  TAGLN3  C019R075 C019R111  NDRG3  < 2e-50  6.20  < 2e-50  6.00  < 2e-50  5.40  transgelin 3  n-myc downstream regulated gene 3  C020R098 C021R022  SERP2  < 2e-50  4.20  < 2e-50  5.00  stress-associated endoplasmic reticulum protein 2  C021R041  < 2e-50  8.20  220  Probe  p-value  log2 FC  C022R071  < 2e-50  4.80  C022R077  < 2e-50  3.70  C023R035  < 2e-50  6.20  < 2e-50  4.70  C023R073  Gene Symbol  FAM5C  Description  family with sequence similarity 5, member c  C023R132  RNFT2  < 2e-50  3.80  transmembrane protein 118  C024R071  NEFL|NEFL  < 2e-50  7.30  neurofilament, light  polypeptide  68kda|neurofilament, light polypeptide 68kda C024R126  < 2e-50  6.60  C024R145  < 2e-50  3.20  < 2e-50  5.10  C026R024  PDHA1  pyruvate dehydrogenase (lipoamide) alpha 1  C026R068  < 2e-50  4.80  C026R073  < 2e-50  7.80  C027R045  < 2e-50  4.20  < 2e-50  3.00  < 2e-50  4.40  < 2e-50  3.90  C027R104  CD9  C028R037 C029R033  AP2B1  cd9 antigen  adaptor-related protein complex 2, beta 1 subunit  221  Probe  Gene Symbol  C030R090 C031R069  GRM2  p-value  log2 FC  < 2e-50  7.60  < 2e-50  5.00  Description  glutamate  receptor,  metabotropic 2 C031R109  < 2e-50  4.90  C031R140  GPM6B  < 2e-50  6.10  glycoprotein m6b  C032R104  TMCC2  < 2e-50  4.80  transmembrane coiled-coil  and domains  protein 2 C034R018 C034R047  CBLN2  < 2e-50  7.10  < 2e-50  6.80  cerebellin 2 precursor protein  C034R139  < 2e-50  7.00  C035R077  < 2e-50  5.50  C036R102  < 2e-50  7.70  C037R014  < 2e-50  3.60  < 2e-50  3.70  C037R037  WRB  tryptophan rich basic protein  C038R099  TMSB  C038R136 C039R148  TP53BP1  < 2e-50  4.70  < 2e-50  6.50  < 2e-50  3.90  thymosin, beta  tumor protein p53 binding protein, 1  C039R166  < 2e-50  3.80  C040R043  < 2e-50  3.60  222  Probe  Gene Symbol  C043R116 C043R123  IRX5  p-value  log2 FC  < 2e-50  6.00  < 2e-50  4.50  Description  iroquois homeobox protein 5  C043R166 C045R018  CAPN1  < 2e-50  4.30  < 2e-50  3.70  calpain 1, (mu/i) large subunit  C045R029 C045R031  ATP6V0A2  < 2e-50  4.00  < 2e-50  4.40  atpase, h+ transporting, lysosomal v0 subunit a2  C045R100 C046R142  NDRG3  < 2e-50  4.70  < 2e-50  4.50  n-myc downstream regulated gene 3  C048R017 C048R153  NDRG3  < 2e-50  5.20  < 2e-50  5.10  n-myc downstream regulated gene 3  C050R033  < 2e-50  3.50  C050R133  < 2e-50  5.00  < 2e-50  3.80  C051R089  CDC42  cell division cycle 42 (gtp binding protein, 25kda)  C052R099  RASSF2  < 2e-50  3.60  ras association domaincontaining protein 2  223  Probe  p-value  log2 FC  C053R092  < 2e-50  8.40  C054R029  < 2e-50  5.50  C054R071  < 2e-50  4.40  < 2e-50  4.50  C054R081  Gene Symbol  SYNE1  Description  spectrin repeat containing, nuclear envelope 1  C055R079  < 2e-50  8.00  C055R092  < 2e-50  4.50  < 2e-50  5.00  C057R082  GM11992  uncharacterized protein c7orf57 homolog  C057R084  < 2e-50  3.60  C058R149  < 2e-50  9.80  < 2e-50  7.00  C059R073  < 2e-50  7.00  C062R061  < 2e-50  5.60  C063R013  < 2e-50  5.20  C063R080  < 2e-50  4.70  C063R085  < 2e-50  3.30  C064R128  < 2e-50  5.80  < 2e-50  5.50  C059R067  C064R141  PCP4  RGS7  purkinje cell protein 4  regulator of g-protein signaling 7  C065R109  < 2e-50  5.50  C066R033  < 2e-50  5.10  C066R039  < 2e-50  3.60  224  Probe C067R037  Gene Symbol  p-value  log2 FC  FABP2  < 2e-50  4.50  Description fatty acid binding protein 2, intestinal  C067R089  < 2e-50  5.90  C069R086  < 2e-50  5.50  < 2e-50  6.30  C070R097  DIRAS2  gtp-binding protein diras2  C070R142  SGK1  < 2e-50  3.70  serum/glucocorticoid regulated kinase  C071R082  CD226  C072R025 C072R038  KIF3C  < 2e-50  5.20  < 2e-50  5.90  < 2e-50  6.60  cd226 antigen precursor  kinesin family member 3c  C072R122  < 2e-50  7.90  C074R124  < 2e-50  3.50  C076R025  < 2e-50  6.40  C076R040  < 2e-50  8.20  C076R087  < 2e-50  5.70  C077R152  < 2e-50  3.70  C079R026  < 2e-50  5.40  C079R112  < 2e-50  6.20  C079R129  < 2e-50  7.40  C079R134  < 2e-50  3.90  225  Probe C079R148  Gene Symbol  p-value  log2 FC  RAC3  < 2e-50  6.00  Description ras-related  c3  bo-  tulinum toxin substrate 3 (rho family, small gtp binding protein rac3) C080R076 C081R161  STMN1  < 2e-50  4.80  < 2e-50  4.50  stathmin 1/oncoprotein 18  C082R018  < 2e-50  3.70  C082R110  < 2e-50  4.00  C085R095  < 2e-50  5.60  C088R017  < 2e-50  7.70  < 2e-50  3.50  C090R097  < 2e-50  5.00  C091R069  < 2e-50  7.90  < 2e-50  5.50  C088R133  C092R050  ATXN7L3  CARTPT  ataxin 7-like 3  cocaine-  and  amphetamine-regulated transcript  protein  precursor C092R153  < 2e-50  7.00  C094R030  < 2e-50  5.50  < 2e-50  3.70  C096R138  PTPRN  protein tyrosine phosphatase, receptor type, n  226  Probe C097R002  Gene Symbol  p-value  log2 FC  PYGM  < 2e-50  4.20  Description phosphorylase, gen;  glyco-  muscle (mcardle  syndrome,  glycogen  storage disease type v) C097R004 C097R143  NDUFA4  < 2e-50  7.80  < 2e-50  4.60  nadh  dehydrogenase  (ubiquinone) 1 alpha subcomplex, 4 C098R148  < 2e-50  3.10  C099R021  < 2e-50  3.20  < 2e-50  3.70  C100R035  OPCML  opioid-binding tein/cell  proadhesion  molecule precursor C101R117  < 2e-50  4.20  C101R145  < 2e-50  4.10  C102R129  < 2e-50  5.60  C103R038  < 2e-50  8.10  C104R080  < 2e-50  3.60  C104R116  < 2e-50  5.30  < 2e-50  4.60  C105R018  SYNE1  spectrin repeat containing, nuclear envelope 1  C105R034  < 2e-50  6.60  227  Probe C105R113  Gene Symbol  p-value  log2 FC  KCTD21  < 2e-50  5.20  Description hypothetical  protein  loc283219 C105R145  < 2e-50  4.30  C106R018  < 2e-50  3.80  C106R029  < 2e-50  5.30  C106R122  GPM6B  < 2e-50  5.80  glycoprotein m6b  C107R050  ARF3  < 2e-50  6.20  adp-ribosylation factor 3  C107R130  CIRBP  < 2e-50  3.50  cold inducible rna binding protein  C109R026 C109R035  CARTPT  < 2e-50  4.60  < 2e-50  5.90  cocaine-  and  amphetamine-regulated transcript  protein  precursor C109R161  < 2e-50  9.60  C110R107  < 2e-50  8.40  C111R039  < 2e-50  4.40  C111R113  < 2e-50  5.60  < 2e-50  6.60  C111R125  DYNC1I1  dynein, cytoplasmic 1, intermediate chain 1  C111R164  LGI1  < 2e-50  3.90  leucine-rich repeat lgi family, member 1  228  Probe  p-value  log2 FC  C111R168  < 2e-50  5.40  C113R141  < 2e-50  8.80  < 2e-50  5.20  C114R046  Gene Symbol  SCRG1  Description  scrapie responsive gene 1  C114R166  < 2e-50  6.50  C115R067  < 2e-50  7.90  C115R128  < 2e-50  5.10  < 2e-50  5.30  C115R137  ZDHHC2  palmitoyltransferase zdhhc2  C115R144 C115R156  PPP1R14B  < 2e-50  6.50  < 2e-50  6.20  protein phosphatase 1, regulatory  (inhibitor)  subunit 14b C116R038  CHL1  < 2e-50  4.80  cell adhesion molecule with homology to l1cam (close homolog of l1)  C117R079 C120R134  GJB1  < 2e-50  6.20  < 2e-50  5.80  gap junction beta-1 protein  C122R032 C122R066  ATP6V0A4  < 2e-50  6.00  < 2e-50  3.90  atpase, h+ transporting, lysosomal v0 subunit a4  229  Probe  Gene Symbol  p-value  log2 FC  Description  C122R077  TSPAN5  < 2e-50  3.90  tetraspanin 5  C123R038  MAPK8IP1  < 2e-50  3.40  mitogen-activated protein kinase 8 interacting protein 1  C123R168  < 2e-50  4.80  < 2e-50  4.10  C124R145  < 2e-50  5.90  C125R044  < 2e-50  6.40  C125R081  < 2e-50  3.00  C127R016  < 2e-50  4.40  C131R022  < 2e-50  7.20  C131R164  < 2e-50  3.70  C132R028  < 2e-50  5.10  C132R070  < 2e-50  5.40  < 2e-50  4.30  C124R125  C132R164  FJ  NKX2.2A  protein four-jointed  homeobox protein nkx2.2a  C133R002  OCM2  < 2e-50  5.50  parvalbumin,  thymic  cpv3 C133R063 C133R081  TRIM39  < 2e-50  5.90  < 2e-50  3.80  tripartite  motif-  containing 39 C135R107  < 2e-50  5.80  230  Probe C135R125  Gene Symbol  p-value  log2 FC  CRG1  < 2e-50  5.70  Description uncharacterized protein yhr209w  C135R126  < 2e-50  6.30  < 2e-50  4.90  C136R151  < 2e-50  6.40  C138R101  < 2e-50  5.40  < 2e-50  3.60  C135R166  C138R124  INSM1  CDC42  insulinoma-associated 1  cell division cycle 42 (gtp binding protein, 25kda)  C138R151  < 2e-50  5.60  C139R006  < 2e-50  7.00  C139R127  < 2e-50  4.40  C140R056  < 2e-50  4.70  < 2e-50  4.10  C141R027  SOX2  sry-box containing gene 2  C143R002  PTPRZ1  < 2e-50  4.50  protein tyrosine phosphatase, receptor-type, z polypeptide 1  C143R065  < 2e-50  4.50  C145R132  < 2e-50  4.60  C147R074  < 2e-50  7.50  < 2e-50  7.50  < 2e-50  6.60  C147R142 C148R126  TUBB2A  tubulin, beta 2a  231  Probe  p-value  log2 FC  C150R084  < 2e-50  5.60  C150R088  < 2e-50  7.10  < 2e-50  5.30  C151R058  Gene Symbol  VSTM2L  Description  v-set  and  trans-  membrane  domain-  containing  protein  2-like protein precursor C153R061  < 2e-50  6.30  < 2e-50  6.70  C158R099  < 2e-50  3.20  C158R102  < 2e-50  7.80  C158R108  < 2e-50  6.80  C158R153  < 2e-50  8.60  < 2e-50  5.80  < 2e-50  6.30  < 2e-50  5.00  C155R160  C159R120  HMP19  GPM6B  C160R024 C160R128  PTPRN  hmp19 protein  glycoprotein m6b  protein tyrosine phosphatase, receptor type, n  C162R133  < 2e-50  6.10  C162R164  < 2e-50  5.80  C163R044  < 2e-50  3.80  < 2e-50  5.20  C164R130  NT5DC1  5-nucleotidase domaincontaining protein 1  232  Probe C164R141  Gene Symbol  p-value  log2 FC  GNG2  < 2e-50  4.9  Description guanine binding  nucleotide protein  (g  protein), gamma 2 C166R132  NPB  C167R007 C167R010  B3GALTL  < 2e-50  4.7  < 2e-50  4.1  < 2e-50  8.2  preproneuropeptide b  beta-1,3glucosyltransferase  n C167R118  SCG2  < 2e-50  6.5  secretogranin-2 precursor  C167R156  < 2e-50  4  C168R020  < 2e-50  4.6  C168R149  < 2e-50  8.5  C168R169  < 2e-50  3.9  C169R097  SPNB2  < 2e-50  4  C169R101  STMN1  < 2e-50  6.7  spectrin beta 2 stathmin 1/oncoprotein 18  C170R164  XPO5  < 2e-50  3.2  C171R130  < 2e-50  6.5  C172R130  < 2e-50  6.2  C173R059  < 2e-50  4.9  C173R084  < 2e-50  8.4  C173R100  < 2e-50  8.4  C173R150  < 2e-50  4.6  exportin 5  233  Probe  p-value  log2 FC  C174R085  < 2e-50  3.4  C174R165  < 2e-50  3.7  < 2e-50  4  C175R107  Gene Symbol  DPYSL3  Description  dihydropyrimidinaselike 3  C176R073  GLUL  < 2e-50  4.4  glutamate-ammonia ligase (glutamine synthetase)  C177R054  < 2e-50  5.1  C177R102  < 2e-50  6.8  C177R123  < 2e-50  4.3  C178R102  < 2e-50  9.9  < 2e-50  4.7  C179R004  OTX2  HES5  homeobox protein otx2  hairy and enhancer of split 5 (drosophila)  C179R028  NDRG3  < 2e-50  5  n-myc downstream regulated gene 3  C179R160  LIN7B  < 2e-50  3.5  lin-7 homolog b (c. elegans)  C180R025 C180R142  C11ORF87  < 2e-50  6.7  < 2e-50  7.1  uncharacterized protein loc399947 homolog precursor  234  Probe C181R102  Gene Symbol  p-value  log2 FC  ACBD7  < 2e-50  7.3  Description acyl-coa-binding domain-containing protein 7  C181R153  < 2e-50  4  C185R033  < 2e-50  5.6  C186R091  < 2e-50  4.6  < 2e-50  4.4  C186R104  GABRD  gamma-aminobutyric acid receptor subunit delta precursor  C190R148  < 2e-50  4.3  C191R077  < 2e-50  5.1  C191R166  < 2e-50  8.4  < 2e-50  4.6  C193R101  SEPT7  PHYHIP  septin-7  phytanoyl-coa hydroxylase interacting protein  C193R121  ARL4D  < 2e-50  3.9  adp-ribosylation factorlike 4d  C194R084 C194R101  WRB  < 2e-50  3.8  < 2e-50  4  tryptophan rich basic protein  C195R014  PPM1L  < 2e-50  3.6  protein phosphatase 1 (formerly 2c)-like  C195R050  < 2e-50  5.8  C199R084  < 2e-50  6  235  Probe  p-value  log2 FC  C200R008  < 2e-50  5.3  C200R058  < 2e-50  4  C200R124  < 2e-50  6.7  C200R169  < 2e-50  3.7  < 2e-50  5  C202R029  Gene Symbol  PTPRN2  Description  protein tyrosine phosphatase, receptor type, n polypeptide 2  C204R005  < 2e-50  4.6  C204R016  < 2e-50  8  C204R063  < 2e-50  3.4  C204R097  < 2e-50  3.9  < 2e-50  3.6  C204R158  TRIM39  tripartite  motif-  containing 39 C205R109  ZIC2  < 2e-50  7  zic finger protein of the cerebellum 2  C205R118  < 2e-50  6.3  C205R142  < 2e-50  5.8  C205R146  < 2e-50  7.8  C206R010  < 2e-50  3.6  C207R113  < 2e-50  7  < 2e-50  6.8  C207R121  UCHL1  ubiquitin terminal  carboxylesterase  l1  (ubiquitin thiolesterase)  236  Probe C207R162  Gene Symbol  p-value  log2 FC  TMEM35  < 2e-50  4.5  Description spinal cord expression protein 4  C208R104  ZNF521  < 2e-50  3.6  zinc finger protein 521  C208R136  CX43  < 2e-50  5.6  connexin 43  C209R076  < 2e-50  4.5  C210R054  < 2e-50  5.1  C210R080  < 2e-50  7.1  C211R112  < 2e-50  5.7  C211R128  < 2e-50  5.7  C211R138  < 2e-50  6.3  C212R127  CALB2  < 2e-50  5.4  calbindin 2  C213R032  SIX3  < 2e-50  5.6  sine oculis homeobox homolog 3 (drosophila)  C213R130  < 2e-50  5  C213R140  < 2e-50  5.6  C214R032  < 2e-50  7.9  C216R144  < 2e-50  4.7  C218R166  < 2e-50  3.4  C219R140  < 2e-50  5.4  < 2e-50  5.7  C220R066  SLMAP  sarcolemma associated protein  C220R086  < 2e-50  4.2  C220R130  < 2e-50  5.2  237  Probe  p-value  log2 FC  C220R143  < 2e-50  3.9  C221R158  < 2e-50  4.2  < 2e-50  3.5  C222R019  < 2e-50  3.4  C223R123  < 2e-50  3.3  C224R124  < 2e-50  7.5  C224R126  < 2e-50  9.5  C225R012  < 2e-50  7.9  C226R047  < 2e-50  3  C226R081  < 2e-50  4.7  < 2e-50  6.7  C226R124  < 2e-50  7.4  C227R136  < 2e-50  3.6  C229R155  < 2e-50  5.4  C221R169  C226R098  Gene Symbol  TSPAN3  OLFM1  Description  tetraspanin 3  olfactomedin 1  C234R117  ANXA13  < 2e-50  4.7  annexin a13  C235R096  NSG1  < 2e-50  6.8  neuron-specific protein family member 1  C236R048  < 2e-50  7.7  < 2e-50  4.9  C236R105  < 2e-50  6.7  C237R139  < 2e-50  4.5  C238R134  < 2e-50  5.7  C242R080  < 2e-50  7.5  C236R057  ANXA13  annexin a13  238  Probe C242R082  Gene Symbol  p-value  log2 FC  MLC1  < 2e-50  6.8  < 2e-50  3.1  < 2e-50  3.4  C243R014 C243R120  NPC1  Description membrane protein mlc1  niemann-pick c1 protein precursor  C244R009  < 2e-50  7.2  C247R027  < 2e-50  4.1  C247R131  < 2e-50  3.2  C247R168  < 2e-50  7.4  < 2e-50  4.7  C248R126  TMEM59  transmembrane protein 59  C248R154  < 2e-50  5.2  < 2e-50  7.1  C254R066  < 2e-50  5.5  C254R084  < 2e-50  3.8  C253R124  STMN3  stathmin-like 3  C256R146  CLDN19  < 2e-50  5.7  claudin 19  C257R028  STMN1  < 2e-50  6.6  stathmin 1/oncoprotein 18  C257R036  < 2e-50  6.4  C257R093  < 2e-50  4.5  C259R104  < 2e-50  8  C261R127  < 2e-50  5.1  C263R154  < 2e-50  5.2  C264R080  < 2e-50  3.7  239  Probe C108R146  Gene Symbol  p-value  log2 FC  FABP4  < 2e-50  6.8  Description fatty acid-binding protein, adipocyte  C030R012 C137R017  CBLN1  < 2e-50  6.2  < 2e-50  8.7  cerebellin 1 precursor protein  C245R115  ENO2  < 2e-50  5.5  enolase 2 (gamma, neuronal)  C224R033  MATR3  C091R150 C204R003  BHLHE22  < 2e-50  4.6  < 2e-50  5.7  < 2e-50  3.7  matrin 3  class b basic helix-loophelix protein 5  C196R056  < 2e-50  6.6  C207R063  < 2e-50  3.7  C103R152  < 2e-50  6.2  C145R083  < 2e-50  4.3  C095R063  < 2e-50  3.3  < 2e-50  4.3  < 2e-50  3.4  < 2e-50  8.7  C227R142  SNCA  C197R066 C104R139  B3GALTL  synuclein, alpha  beta-1,3glucosyltransferase  C180R092  < 2e-50  3.1  C250R137  < 2e-50  6.2  240  Probe C129R090  Gene Symbol  p-value  log2 FC  LINGO2  < 2e-50  4.2  Description leucine rich repeat neuronal 6c  C112R073  < 2e-50  3.8  C137R124  < 2e-50  5  < 2e-50  3.1  C048R058  PTBP2  polypyrimidine  tract  binding protein 2 C215R104  < 2e-50  3.8  C216R094  < 2e-50  4.2  C075R098  < 2e-50  3.7  < 2e-50  9.2  C199R148  B3GALTL  beta-1,3glucosyltransferase  C020R102  < 2e-50  4.7  C255R067  < 2e-50  3.9  C146R057  LMO1  < 2e-50  5  C074R081  CXXC5  < 2e-50  4.2  C107R067  < 2e-50  3.1  C251R120  < 2e-50  7.9  C255R060  < 2e-50  4.6  C065R143  < 2e-50  5.7  < 2e-50  3.6  < 2e-50  3.7  C066R076 C232R104  UNC-4  lim domain only 1 cxxc finger 5  homeobox protein unc-4  241  Probe C246R158  Gene Symbol  p-value  log2 FC  FEZ1  < 2e-50  4.9  Description fasciculation and elongation protein zeta 1 (zygin i)  C042R065  < 2e-50  4.2  C150R025  < 2e-50  6.4  < 2e-50  6.9  C119R132  GNAO1  guanine  nucleotide  binding protein (g protein), alpha activating activity polypeptide o C026R080  < 2e-50  4.5  C227R107  < 2e-50  5.2  < 2e-50  4.6  C100R042  LPPR3  lipid  phosphate  phosphatase-related protein type 3 C261R036  GRM1  < 2e-50  5.1  glutamate  receptor,  metabotropic 1 C113R099 C138R068  SGSM1  < 2e-50  3.8  < 2e-50  3.8  small g protein signaling modulator 1  C180R031  C1QTNF4  < 2e-50  6.6  complement c1q tumor necrosis  factor-related  protein 4 precursor C025R071  < 2e-50  4.5  242  Probe  Gene Symbol  p-value  log2 FC  RTN3  < 2e-50  4.4  C071R153  < 2e-50  4.8  C073R037  < 2e-50  3.1  < 2e-50  5.7  C097R041  C218R079  ATP6V0A1  Description reticulon 3  atpase, h+ transporting, lysosomal v0 subunit a isoform 1  C110R086  CAR4  C036R122 C235R019  KHDRBS2  < 2e-50  4.8  < 2e-50  6.7  < 2e-50  3.2  carbonic anhydrase 4  kh domain-containing, rna-binding,  signal  transduction-associated protein 2 C068R056  GRM2  < 2e-50  4.8  glutamate  receptor,  metabotropic 2 C090R085  SERPINE1  < 2e-50  3  serpin  peptidase  in-  hibitor, clade e (nexin, plasminogen  activa-  tor inhibitor type 1), member 1 C084R166  LMO4  < 2e-50  3.7  mgc97667 protein  C123R101  BHLHE41  < 2e-50  4.3  class b basic helix-loophelix protein 3  C149R063  < 2e-50  4.9  243  Probe  Gene Symbol  p-value  log2 FC  Description  C162R141  ZFP608  < 2e-50  4.5  zinc finger protein 608  C065R121  LINGO2  < 2e-50  4.1  leucine rich repeat neuronal 6c  C009R029  PTN  < 2e-50  6.9  pleiotrophin  [heparin  binding growth factor 8,  neurite  growth-  promoting factor 1] C255R083 C083R097  SCG2  < 2e-50  4.3  < 2e-50  6.1  secretogranin-2 precursor  C157R047  DMXL2  < 2e-50  7  C066R122  ATP6V1E1  < 2e-50  3.8  dmx-like 2 atpase, h+ transporting, lysosomal 31kda, v1 subunit e1  C095R099  CRHBP  < 2e-50  4.5  corticotropin releasing hormone binding protein  C221R162  ZIC5  < 2e-50  5.9  zic family member 5 (odd-paired  homolog,  drosophila) C111R088  < 2e-50  4.1  C191R148  < 2e-50  5.3  244  Probe C079R114  Gene Symbol  p-value  log2 FC  SLAIN1  < 2e-50  6.4  Description slain  motif-containing  protein 1 C174R028  < 2e-50  4.4  C036R015  < 2e-50  3.6  C019R004  < 2e-50  5.6  < 2e-50  7.4  < 2e-50  6.1  < 2e-50  6.4  C117R070  SYP  C153R053 C087R132  CADPS  synaptophysin  ca<2+>dependent activator protein for secretion  C252R121 C051R029  S100B  < 2e-50  3.9  < 2e-50  8.1  s100 calcium binding protein, beta (neural)  C033R119  < 2e-50  4.8  C259R077  < 2e-50  3.2  < 2e-50  3.1  C091R079  GPR88  g-protein coupled receptor 88  C049R161 C190R023  SLITRK5  < 2e-50  6.7  < 2e-50  4.7  slit and ntrk-like family, member 5  C128R150  < 2e-50  7.8  C150R104  DYNLL2  < 2e-50  6.2  dynein light chain-2  C037R125  R3HDM1  < 2e-50  3.9  r3h domain containing 1  245  Probe  Gene Symbol  p-value  log2 FC  Description  C138R153  DYNLL2  < 2e-50  4.6  dynein light chain-2  C090R143  LHFPL4  < 2e-50  4.9  lipoma  hmgic  fusion  partner-like protein 4 C030R075  FLVCR1  < 2e-50  3.4  feline  leukemia  subgroup  c  virus  receptor-  related protein 1 C199R138  CAMKVB  < 2e-50  3.1  cam kinase-like vesicleassociated protein  C240R092  TMEM60  < 2e-50  3.2  transmembrane protein 60  C238R054  LGI1  < 2e-50  4.6  leucine-rich repeat lgi family, member 1  C175R017  < 2e-50  4.8  C087R151  < 2e-50  7.4  < 2e-50  6.7  C114R133  B3GALTL  beta-1,3glucosyltransferase  C199R060  HES6  < 2e-50  3.6  hairy and enhancer of split 6 (drosophila)  C035R023 C030R067  TUSC3  < 2e-50  4.1  < 2e-50  5.4  tumor suppressor candidate 3  246  Probe C222R050  Gene Symbol  p-value  log2 FC  TAC1  < 2e-50  4.8  Description tachykinin, precursor 1 (substance k, substance p, neurokinin 1, neurokinin 2, neuromedin l, neurokinin alpha, neuropeptide k, neuropeptide gamma)  C157R041  MAPK8IP1  < 2e-50  3.9  mitogen-activated protein kinase 8 interacting protein 1  C025R057 C197R122  4930588N13RIK  < 2e-50  3.8  < 2e-50  4.2  uncharacterized protein c13orf26 homolog  C005R061  < 2e-50  4.7  < 2e-50  5.8  C188R021  < 2e-50  8.5  C119R157  < 2e-50  3.1  < 2e-50  4.2  C117R063  C070R164  CALR  CABP1  calreticulin  calcium-binding protein 1  C129R144 C104R126  RAB36  < 2e-50  5.6  < 2e-50  4.6  ras-related protein rab36  C122R087  < 2e-50  7.9  247  Probe  p-value  log2 FC  C161R138  < 2e-50  3.8  C038R098  < 2e-50  4.3  < 2e-50  3.7  C035R151  Gene Symbol  TRIM36  Description  tripartite  motif-  containing  protein  36 C237R137 C142R010  SLC12A2  < 2e-50  4.3  < 2e-50  5.5  solute carrier family 12 member 2  C105R012  CLDN19  < 2e-50  4.9  claudin 19  C196R051  NEFL|NEFL  < 2e-50  5.8  neurofilament, light  polypeptide  68kda|neurofilament, light polypeptide 68kda C052R051 C028R148  NLGN4X  < 2e-50  6.8  < 2e-50  4  neuroligin-4,  x-linked  precursor C048R134 C215R128  B3GALTL  < 2e-50  5.7  < 2e-50  8.8  beta-1,3glucosyltransferase  C017R132  B3GALTL  < 2e-50  7.1  beta-1,3glucosyltransferase  C232R043  < 2e-50  3.4  C042R042  < 2e-50  5.3  248  Probe  Gene Symbol  C133R162 C101R001  B3GALTL  p-value  log2 FC  < 2e-50  4.2  < 2e-50  8.2  Description  beta-1,3glucosyltransferase  C049R133 C125R015  TMEM30A  < 2e-50  5.9  < 2e-50  3.1  cell cycle control protein 50a  C170R154  < 2e-50  6.1  C032R057  < 2e-50  5  C078R089  < 2e-50  6.1  C074R025  < 2e-50  3.9  C195R145  < 2e-50  7.3  C020R041  < 2e-50  4.5  C145R024  < 2e-50  3.9  < 2e-50  5.4  C167R020  OCM2  parvalbumin,  thymic  cpv3 C209R104  PORCN  < 2e-50  3.2  probable  protein-  cysteine  n-  palmitoyltransferase porcupine C223R012  < 2e-50  4  < 2e-50  3.8  C014R021  < 2e-50  4.2  C255R095  < 2e-50  5.5  C026R105  ZIC3  zinc finger protein zic 3  249  Probe  Gene Symbol  C174R111 C167R006  WASF3  p-value  log2 FC  < 2e-50  4.1  < 2e-50  3.7  Description  was  protein  family,  member 3 C055R066 C027R043  HAVCR1  < 2e-50  5.1  < 2e-50  4.7  hepatitis a virus cellular receptor 1 homolog precursor  C072R032  < 2e-50  7  C236R112  < 2e-50  3.7  C094R045  < 2e-50  5.3  C167R092  < 2e-50  3.2  < 2e-50  4.3  C172R146  GPR173  probable g-protein coupled receptor 173  C004R113 C106R069  SCG5  < 2e-50  5.8  < 2e-50  6.9  secretory granule, neuroendocrine protein 1 (7b2 protein)  C083R152  < 2e-50  6.5  C193R130  < 2e-50  7.4  250  Probe C005R056  Gene Symbol  p-value  log2 FC  TAC1  < 2e-50  4.6  Description tachykinin, precursor 1 (substance k, substance p, neurokinin 1, neurokinin 2, neuromedin l, neurokinin alpha, neuropeptide k, neuropeptide gamma)  C119R017 C077R046  CXXC1  < 2e-50  6  < 2e-50  3.5  cxxc finger 1 (phd domain)  C197R160  TUBB2A  < 2e-50  4.9  tubulin, beta 2a  C134R037  HSPA4L  < 2e-50  5.2  heat shock 70 kda protein 4l  C201R100  TKT  < 2e-50  4.7  transketolase  C077R032  ANO4  < 2e-50  4.5  transmembrane protein 16d  C170R063  < 2e-50  3.9  C174R075  < 2e-50  5.3  < 2e-50  4.5  C247R112  CNP-3  c-type natriuretic peptide 3 precursor  C076R114  HNRPLL  < 2e-50  3.3  heterogeneous  nuclear  ribonucleoprotein l-like C080R005  < 2e-50  4.1  251  Probe C228R025  Gene Symbol  p-value  log2 FC  CLIP3  < 2e-50  3.5  < 2e-50  3.4  < 2e-50  4.8  C180R140 C015R039  PI16  Description clip-170-related protein  peptidase inhibitor 16 precursor  C161R127  < 2e-50  6.2  C216R106  < 2e-50  3.1  C182R073  < 2e-50  5.7  < 2e-50  6.1  C265R085  EEF1A1|TRIM24  eukaryotic  transla-  tion elongation factor 1  alpha  1|tripartite  motif-containing 24 C091R046  GAD1  < 2e-50  6.3  glutamic  acid  decar-  boxylase C160R089  PAX6  < 2e-50  4  paired  box  gene  (aniridia, keratitis) C022R135 C118R144  AFUA 2G07670  < 2e-50  4  < 2e-50  3.6  palmitoyltransferase akr1  C033R013  < 2e-50  4  C047R159  < 2e-50  5.8  C246R086  < 2e-50  4.6  < 2e-50  6  < 2e-50  3.2  C147R126 C148R115  PDYN  prodynorphin  252  6  Probe C213R096  Gene Symbol  p-value  log2 FC  HAPLN2  < 2e-50  5.3  Description hyaluronan and proteoglycan link protein 2 precursor  C116R042  < 2e-50  4.5  C092R039  < 2e-50  3.9  < 2e-50  6.5  C200R037  CKMT1B|CKMT1A  creatine kinase, mitochondrial kinase,  1b|creatine mitochondrial  1b C040R084  < 2e-50  3.8  C125R069  < 2e-50  3  < 2e-50  6.2  C253R026  UCHL1  ubiquitin terminal  carboxylesterase  l1  (ubiquitin thiolesterase) C222R118  SLC5A7  < 2e-50  4  solute carrier family 5 (choline  transporter),  member 7 C135R161  ISCU  < 2e-50  5  nifu-like n-terminal domain containing  C250R018  < 2e-50  6  < 2e-50  3.2  C108R063  < 2e-50  4.3  C089R093  < 2e-50  6.4  C138R164  NOX1  nadph oxidase 1  253  Probe C228R056  Gene Symbol  p-value  log2 FC  DMBX1A  < 2e-50  4.1  Description diencephalon/mesencephalon homeobox protein 1-a  C143R030  FLII  < 2e-50  4.1  flightless  i  homolog  (drosophila) C120R024  < 2e-50  5.1  C099R037  < 2e-50  7.4  C033R050  < 2e-50  4  < 2e-50  3.4  C207R036  < 2e-50  6.8  C105R063  < 2e-50  3.5  C238R027  < 2e-50  3.2  C053R079  < 2e-50  4.4  C222R076  < 2e-50  4.4  < 2e-50  4.6  < 2e-50  3.4  < 2e-50  4  < 2e-50  7.7  < 2e-50  6.3  < 2e-50  3.7  < 2e-50  5.8  C172R012  C100R059  NDRG4  STMN4  C114R085 C148R074  NF1  C031R127 C060R099  OTPB  C105R093 C210R059  CADPS  ndrg4-prov protein  stathmin-like 4  neurofibromin  orthopedia protein  ca<2+>dependent activator protein for secretion  C206R079  < 2e-50  3.5  254  Probe  Gene Symbol  C055R136 C264R143  CCDC85B  p-value  log2 FC  < 2e-50  5.1  < 2e-50  4  Description  hepatitis delta antigeninteracting protein a  C020R155  < 2e-50  3.9  C146R051  < 2e-50  6.7  < 2e-50  3.9  C245R138  RASD1  ras,  dexamethasone-  induced 1 C062R019  < 2e-50  8.9  C038R007  < 2e-50  4  < 2e-50  3.7  C182R161  RASD1  ras,  dexamethasone-  induced 1 C232R148  < 2e-50  5.2  C226R011  < 2e-50  4.2  < 2e-50  5.5  C262R110  UCHL1  ubiquitin terminal  carboxylesterase  l1  (ubiquitin thiolesterase) C157R075  < 2e-50  3.7  C218R085  < 2e-50  3.1  < 2e-50  4  C186R040  < 2e-50  5.5  C240R139  < 2e-50  3  C192R105  SP5  sp5 transcription factor  255  Probe C074R113  Gene Symbol  p-value  log2 FC  SEMA7A  < 2e-50  3.2  Description sema  domain,  munoglobulin  imdomain  (ig), and gpi membrane anchor,  (semaphorin)  7a C085R040 C135R066  TSHZ1  < 2e-50  4.7  < 2e-50  4.8  serologically  defined  colon cancer antigen 33 C150R039 C012R079  HES5  < 2e-50  3.4  < 2e-50  4.4  hairy and enhancer of split 5 (drosophila)  C159R107 C203R124  EZH2  < 2e-50  3.4  < 2e-50  7.3  enhancer of zeste homolog 2 (drosophila)  C052R020  APLP1  < 2e-50  4.2  amyloid  beta  (a4)  precursor-like protein 1 C079R160  < 2e-50  3.7  C137R091  < 2e-50  4.6  C201R033  < 2e-50  3.2  < 2e-50  5.2  C031R051  HAPLN4  hyaluronan and proteoglycan link protein 4  C241R078  < 2e-50  3.5  C144R100  < 2e-50  3.9  256  Probe C096R044  Gene Symbol  p-value  log2 FC  RGS16  < 2e-50  4.8  Description regulator of g-protein signalling 16  C255R101  LIN7B  < 2e-50  3.2  lin-7 homolog b (c. elegans)  C080R028 C070R027  EFCAB7  < 2e-50  3.6  < 2e-50  5.2  ef-hand  calcium-  binding  domain-  containing  protein  7 C110R162 C246R094  RAB6B  < 2e-50  5.8  < 2e-50  5.7  rab6b,  member  ras  oncogene family C061R156  < 2e-50  3.3  C098R125  < 2e-50  3.1  < 2e-50  5.9  C212R016  POU4F2  pou domain, class 4, transcription factor 2  C227R151 C068R154  MDK-B  < 2e-50  3.9  < 2e-50  3  pleiotrophic  factor-  alpha-2 precursor C112R074  FBXO2  < 2e-50  3.4  f-box protein 2  C144R007  TMEM35  < 2e-50  5.2  spinal cord expression protein 4  C185R063  < 2e-50  3.2  257  Probe  Gene Symbol  p-value  log2 FC  C068R105  < 2e-50  4.2  C246R145  < 2e-50  4  C116R113  < 2e-50  5.5  Description  C169R136  ZIC1  < 2e-50  4.1  zinc finger protein zic 1  C101R157  TJP1  < 2e-50  4.2  tight junction protein 1 (zona occludens 1)  C120R045  < 2e-50  3.8  C023R130  < 2e-50  4.5  C035R048  < 2e-50  3.6  C240R152  < 2e-50  3.3  < 2e-50  4.3  C117R151  GRM7  glutamate  receptor,  metabotropic 7 C232R141  CYGB-2  < 2e-50  3.3  cytoglobin-2  C169R015  SDCBP  < 2e-50  7.1  syndecan binding protein (syntenin)  C193R096 C099R084  DNER  < 2e-50  4.8  < 2e-50  6.3  delta/notch-like related receptor  C250R099  < 2e-50  6.7  C021R015  < 2e-50  5.2  C092R131  < 2e-50  6.3  C152R040  < 2e-50  3.2  C073R148  < 2e-50  5.7  258  egf-  Probe C018R073  Gene Symbol  p-value  log2 FC  SYT9  < 2e-50  3.5  < 2e-50  3.4  < 2e-50  5.3  C172R086 C136R038  CAMK2D2  Description synaptotagmin-9  calcium/calmodulindependent  protein  kinase type ii delta-a chain C150R003  < 2e-50  4.4  < 2e-50  3.3  C185R012  < 2e-50  5.6  C169R035  < 2e-50  5.2  < 2e-50  5.1  C045R116  C031R086  FBXO2  ISLR2  f-box protein 2  immunoglobulin perfamily  su-  containing  leucine-rich repeat 2 C169R062  SLC32A1  < 2e-50  5.5  solute carrier family 32 (gaba vesicular transporter), member 1  C036R089 C057R003  ISYNA1-A  < 2e-50  7.9  < 2e-50  3.8  inositol-3-phosphate synthase a  C160R053  CNDP2  < 2e-50  8.6  cndp  dipeptidase  2  (metallopeptidase m20 family) C199R133  < 2e-50  6  259  Probe C238R046  Gene Symbol  p-value  log2 FC  CNDP2  < 2e-50  8.8  Description cndp  dipeptidase  2  (metallopeptidase m20 family) C180R149  NEBL  C215R063 C186R170  KCNG2  < 2e-50  5.2  < 2e-50  7.4  < 2e-50  4  nebulette  potassium gated  voltage-  channel,  family  g,  sub-  member  2 C240R067  ZIC3  C072R079 C130R041  ALDH5A1  < 2e-50  6.4  < 2e-50  3.9  < 2e-50  3.5  zinc finger protein zic 3  aldhehyde  dehydroge-  nase family 5, subfamily a1 C185R094  L3MBTL1  < 2e-50  4.8  lethal(3)malignant brain tumor-like protein  C109R058 C208R047  CNTNAP2  < 2e-50  3.5  < 2e-50  3.3  contactin  associated  protein-like 2 C240R136  < 2e-50  3.3  C138R021  < 2e-50  7.9  C023R077  < 2e-50  3.2  260  Probe  p-value  log2 FC  C081R054  < 2e-50  3.4  C095R147  < 2e-50  8  C128R164  < 2e-50  4  < 2e-50  6.2  C124R100  Gene Symbol  CAR8  Description  carbonic  anhydrase-  related protein C165R004  GYC88E  < 2e-50  4.4  soluble guanylate cyclase 88e  C091R157  VAMP2  < 2e-50  4.1  vesicle-associated membrane protein 2  C012R133  NEFM  < 2e-50  7.5  neurofilament medium polypeptide  C104R057  < 2e-50  6  C169R093  < 2e-50  4  < 2e-50  3.1  C230R111  HN1  hematological and neurological expressed 1  C026R032  NEUROD  < 2e-50  6.3  neurogenic differentiation factor 1  C088R093  RPAP1  < 2e-50  4.6  rna polymerase ii associated protein 1  C003R042 C156R127  ANKRD13D  < 2e-50  3.1  < 2e-50  3  ankyrin repeat domain 13 family, member d  261  Probe C019R167  Gene Symbol  p-value  log2 FC  NANOS1  < 2e-50  3.1  Description nanos  homolog  1  (drosophila) C149R077 C122R042  EPB49  < 2e-50  4.6  < 2e-50  3.8  erythrocyte membrane protein band 4.9 (dematin)  C219R070  TMEM60  < 2e-50  3.3  transmembrane protein 60  C127R141  < 2e-50  4  C223R061  < 2e-50  5  < 2e-50  5  C188R100  TMEM25  transmembrane protein 25  C244R164  PHI-1  < 2e-50  4  protein phosphatase 1 regulatory subunit 14b  C242R010  < 2e-50  4.8  C258R042  < 2e-50  4.7  C261R084  < 2e-50  3.1  C084R109  CD209E  < 2e-50  3.9  cd209e antigen  C183R087  OAT  < 2e-50  4.4  ornithine  aminotrans-  ferase C248R057  < 2e-50  5.3  C034R023  < 2e-50  4  262  Probe C064R164  Gene Symbol  p-value  log2 FC  SCHIP1  < 2e-50  4  Description schwannomin interacting protein 1  C015R109  ATP6V1G1  < 2e-50  3.3  vacuolar proton pump subunit g 1  C090R057  ATP1A3  < 2e-50  3.2  sodium/potassiumtransporting  atpase  subunit alpha-3 C088R072 C032R023  TDRKH  < 2e-50  6.1  < 2e-50  3.4  tudor and kh domain containing  C224R051  NPTX1  < 2e-50  5.8  < 2e-50  4  < 2e-50  4  < 2e-50  6.4  < 2e-50  4  C057R140  < 2e-50  3.2  C193R106  < 2e-50  3.1  C239R065  < 2e-50  4.6  < 2e-50  4  < 2e-50  4  C115R032 C078R050  GAP43-A  C265R049 C080R128  C137R155  TUBB3  TUBA4A  C021R045  neuronal pentraxin 1  neuromodulin  tubulin, beta 3  tubulin, alpha 4  C105R111  NELL2  < 2e-50  5.2  nel-like 2 (chicken)  C181R051  STMN1  < 2e-50  3.3  stathmin 1/oncoprotein 18  263  Probe  Gene Symbol  C134R083 C101R065  MYCBPAP  p-value  log2 FC  < 2e-50  8.6  < 2e-50  3.8  Description  mycbp associated protein  C064R077  < 2e-50  4.1  C151R094  < 2e-50  7.2  C081R018  < 2e-50  3.5  C265R107  < 2e-50  4.5  C015R079  < 2e-50  3.8  C014R145  < 2e-50  6.8  < 2e-50  3.9  C208R030  PTPRZ1  protein tyrosine phosphatase, receptor-type, z polypeptide 1  C253R122 C079R045  Atp6v1b2  < 2e-50  8.3  < 2e-50  3.5  atpase, h+ transporting, lysosomal 56/58kd, v1 subunit b, isoform 2  C144R072  < 2e-50  3.4  C139R008  TYK2  < 2e-50  4.3  tyrosine kinase 2  C193R026  ANXA13  < 2e-50  3.2  annexin a13  C149R008  BSDC1  < 2e-50  3.6  bsd domain-containing protein 1  C109R168  PACS1  < 2e-50  3.9  expressed  sequence  ai325977  264  Probe  p-value  log2 FC  C130R132  < 2e-50  3.2  C028R070  < 2e-50  3.4  < 2e-50  3  C103R101  Gene Symbol  DSCAM  Description  down syndrome cell adhesion molecule  C196R115  < 2e-50  6.5  C090R021  < 2e-50  3.7  < 2e-50  3.6  C155R148  SVOP  sv2 related protein homolog (rat)  C172R008  ELOVL1  < 2e-50  4  C222R009  SEZ6L  < 2e-50  5.3  cgi-88 protein seizure related gene 6 (mouse)-like  C220R123  NTRK3  < 2e-50  4.6  neurotrophic  tyrosine  kinase, receptor, type 3 C148R018  < 2e-50  3.5  C187R009  < 2e-50  6.5  < 2e-50  3.1  C163R100  KIDINS220B  ankyrin  repeat-rich  membrane  spanning  protein C229R105 C219R080  NEFL|NEFL  < 2e-50  3.5  < 2e-50  6.2  neurofilament, light  polypeptide  68kda|neurofilament, light polypeptide 68kda  265  Probe C188R146  Gene Symbol  p-value  log2 FC  KIF3C  < 2e-50  4.4  Description kinesin family member 3c  C052R004  CNDP2  < 2e-50  8.3  cndp  dipeptidase  2  (metallopeptidase m20 family) C126R161  < 2e-50  4.9  C239R147  < 2e-50  3.3  < 2e-50  5.2  C207R048  < 2e-50  6.7  C193R147  < 2e-50  3.9  < 2e-50  4.1  C249R154  C069R060  ZIC1  PRUNE2  zinc finger protein zic 1  bnip2 motif-containing molecule  at  the  c-  terminal region 1 C111R012 C247R060  ATP6V1A  < 2e-50  4.4  < 2e-50  3  atpase, h+ transporting, lysosomal (vacuolar proton pump), alpha polypeptide, 70kd, isoform 1  C220R023  < 2e-50  5.8  < 2e-50  5.5  C020R127  < 2e-50  4.4  C064R016  < 2e-50  4  C201R107  CLDN6  claudin 6  266  Probe C178R059  Gene Symbol  p-value  log2 FC  NELL2  < 2e-50  4.1  < 2e-50  4.4  < 2e-50  4.4  C063R105 C186R132  FABP2  Description nel-like 2 (chicken)  fatty acid binding protein 2, intestinal  C035R031  C9ORF25  < 2e-50  3.5  uncharacterized protein c9orf25  C182R060  < 2e-50  5.4  C216R137  CKB  < 2e-50  4.8  creatine kinase, brain  C118R076  CHST1  < 2e-50  3.5  zgc:100904  C188R085  < 2e-50  3.1  C101R023  < 2e-50  3.9  C076R085  < 2e-50  6.6  C212R170  < 2e-50  4.2  < 2e-50  4.6  C218R033  DHRS12  dehydrogenase/reductase sdr family member 12  C140R152  < 2e-50  3.1  C156R059  PELI3  < 2e-50  4.9  pellino 3  C134R104  ZGC:101028  < 2e-50  5.2  zgc:101028  C116R030  XKR7  < 2e-50  3.4  xk-related protein 7  C217R095  < 2e-50  5.1  C001R085  < 2e-50  4.5  C076R135  < 2e-50  5.2  267  Probe C018R064  Gene Symbol  p-value  log2 FC  TRIM46  < 2e-50  3.3  Description tripartite  motif-  containing  protein  46 C089R082  < 2e-50  3.2  C255R072  < 2e-50  6.1  < 2e-50  5.9  < 2e-50  3.6  < 2e-50  4.4  C063R044  NPTX1  C064R049 C176R162  FAM49A  neuronal pentraxin 1  family with sequence similarity 49, member a  C034R168 C214R048  EIF3A  < 2e-50  4.3  < 2e-50  4.4  eukaryotic  translation  initiation  factor  3  subunit a C111R049 C099R133  STXBP1  < 2e-50  5.2  < 2e-50  6.8  syntaxin binding protein 1  C022R008  UCHL1  < 2e-50  5.7  ubiquitin terminal  carboxylesterase  l1  (ubiquitin thiolesterase) C168R021  < 2e-50  3.8  C089R056  < 2e-50  4.3  < 2e-50  3  < 2e-50  6.3  C066R152 C183R137  CDH18  cadherin 18, type 2  268  Probe C080R107  Gene Symbol  p-value  log2 FC  AIG1  < 2e-50  3  Description androgen-induced protein 1  C239R088  < 2e-50  6.8  C264R127  < 2e-50  5.3  < 2e-50  4.4  C071R006  FKBP1A  fk506-binding  protein  1a C122R058  < 2e-50  4.6  < 2e-50  4.9  C117R001  < 2e-50  3.8  C242R155  < 2e-50  4.2  < 2e-50  5  C021R141  C037R053  CROCC  TMBIM1  rootletin  transmembrane bax inhibitor motif containing 1  C250R063  < 2e-50  3.6  C137R068  < 2e-50  4.1  C249R050  < 2e-50  5.1  C217R008  < 2e-50  3.7  < 2e-50  6.7  C075R115  ZIC5  zic family member 5 (odd-paired  homolog,  drosophila) C086R130  < 2e-50  4.6  C244R032  < 2e-50  4.8  C017R148  < 2e-50  6.5  269  Probe C042R117  Gene Symbol  p-value  log2 FC  C1ORF187  < 2e-50  3.8  Description chromosome  1  open  reading frame 187 C016R167  < 2e-50  3.5  C233R081  ASTN1  < 2e-50  4.9  astrotactin 1  C216R007  DNER  < 2e-50  5.6  delta/notch-like  egf-  related receptor C161R070  C19ORF20  < 2e-50  3.1  chromosome 19 open reading frame 20  C094R075 C239R150  PCBP3  < 2e-50  3.6  < 2e-50  6.4  poly(rc) binding protein 3  C038R047  GRLF1  < 2e-50  5.8  glucocorticoid receptor dna binding factor 1  C165R065 C131R103  GGT7  < 2e-50  3.1  < 2e-50  3.3  gammaglutamyltransferase 4 precursor  C257R146  EMB  < 2e-50  5.3  embigin precursor  C163R010  RAB3B  < 2e-50  4.9  ras-related protein rab3b  C255R136 C214R118  GNB5  < 2e-50  4.4  < 2e-50  5.3  guanine  nucleotide  binding protein, beta 5  270  Probe C132R131  Gene Symbol  p-value  log2 FC  SOX3  < 2e-50  3.3  Description transcription factor sox3  C097R025  < 2e-50  4  C249R103  < 2e-50  3.5  C154R114  ANXA13  < 2e-50  4.4  annexin a13  C053R044  MDK-A  < 2e-50  6.8  pleiotrophic  factor-  alpha-1 precursor C141R160  SEC31A  < 2e-50  3.2  sec31-like 1 (s.  cere-  visiae) C122R065  CA8  < 2e-50  5.5  carbonic anhydrase viii  C140R019  TRAPPC2L  < 2e-50  4.6  riken cdna 1810017g16 gene  C261R102  TTYH1  < 2e-50  3.9  protein tweety homolog 1  C214R086  GPM6B  C241R074  < 2e-50  5.4  < 2e-50  3.1  glycoprotein m6b  C020R069  SYT12  < 2e-50  6.3  synaptotagmin-12  C204R126  MDK-A  < 2e-50  7.1  pleiotrophic  factor-  alpha-1 precursor C250R040  SCG2  < 2e-50  4.9  secretogranin-2 precursor  271  Probe C151R044  Gene Symbol  p-value  log2 FC  PPAPDC1A  < 2e-50  3.5  Description phosphatidic acid phosphatase type 2 domain containing 1a  C073R059  RGS7BPB  < 2e-50  4.9  regulator of g-protein signaling 7-binding protein b  C158R126  GPR3  < 2e-50  4.1  g protein-coupled receptor 3  C057R132  KCNIP1  < 2e-50  3.6  kv  channel-interacting  protein 1 C112R122  < 2e-50  7.5  C110R001  < 2e-50  3  C169R018  < 2e-50  3.1  < 2e-50  7.5  C227R087  ATP1B4  atpase,  (na+)/k+  transporting,  beta  4  polypeptide C091R075  CD226  < 2e-50  3.4  cd226 antigen precursor  C034R142  CKMT1  < 2e-50  3.5  creatine kinase, mitochondrial 1, ubiquitous  C145R138  ATP6V0E2  < 2e-50  4.7  vacuolar atp synthase subunit e 2  C136R058  < 2e-50  3.9  272  Probe C030R029  Gene Symbol  p-value  log2 FC  FAM49A  < 2e-50  3.9  Description family with sequence similarity 49, member a  C213R163  < 2e-50  3.8  C046R096  < 2e-50  3.6  C242R085  < 2e-50  3.5  C071R080  APOA1BP  < 2e-50  3.6  zgc:92263  C209R125  DNM1  < 2e-50  3.1  dynamin-1  C179R162  DUSP14  < 2e-50  3.5  dual specificity phosphatase 14  C146R071  < 2e-50  3.1  C069R110  < 2e-50  4.2  C010R153  < 2e-50  6  < 2e-50  3.3  C110R053  HES6  hairy and enhancer of split 6 (drosophila)  C037R072  SLC12A2  < 2e-50  3.2  solute carrier family 12 member 2  C026R122  CIRBP  < 2e-50  3.4  cold inducible rna binding protein  C031R162  FAM49A  < 2e-50  4.1  family with sequence similarity 49, member a  C073R056  PHYHIP  < 2e-50  4.5  phytanoyl-coa hydroxylase interacting protein  273  Probe C156R097  Gene Symbol  p-value  log2 FC  RAP2IP  < 2e-50  3.3  Description run domain-containing protein 3a  C164R030  EFHD2  < 2e-50  3.4  ef-hand  domain-  containing  protein  d2 C209R119  < 2e-50  3.2  C172R084  LPHN3  < 2e-50  3.1  latrophilin-3 precursor  C161R079  BTBD10  < 2e-50  3.8  btb (poz) domain containing 10  C145R158 C250R045  TSPAN7  C084R035  < 2e-50  4.7  < 2e-50  4.3  < 2e-50  4.5  tetraspanin 7  C187R048  CPNE2  < 2e-50  4.2  copine ii  C089R120  POU3F3B  < 2e-50  4.1  pou domain protein 1  < 2e-50  3.4  < 2e-50  3.7  C129R071 C193R108  TRIM23  riken cdna 6330516o20 gene  C096R076  TDRKH  < 2e-50  3.3  tudor and kh domain containing  C067R142  SH3GL2  < 2e-50  3.8  sh3-domain grb2-like 2  C229R022  MPZ  < 2e-50  5.1  myelin  protein  zero  (charcot-marie-tooth neuropathy 1b)  274  Probe C152R066  Gene Symbol  p-value  log2 FC  RDH12  < 2e-50  3.2  Description retinol  dehydrogenase  12 (all-trans and 9-cis) C123R162 C156R094  C9ORF4  < 2e-50  3.9  < 2e-50  4  uncharacterized protein c9orf4  C067R003  WBSCR17  < 2e-50  3.8  williams-beuren drome  syn-  chromosome  region 17 C093R073  CAMK4  < 2e-50  4.6  calcium/calmodulindependent  protein  kinase iv C055R103 C125R054  KIAA1409  C246R154  < 2e-50  6.4  < 2e-50  4  < 2e-50  3.6  kiaa1409  C208R071  CLDN19  < 2e-50  4  claudin 19  C067R078  KCNIP4  < 2e-50  5  kv  channel-interacting  protein 4 C047R139  NRXN1  < 2e-50  3.6  neurexin-1-alpha  pre-  cursor C075R104  < 2e-50  5.2  C008R049  < 2e-50  3.7  < 2e-50  4.1  C100R153  FAM49A  family with sequence similarity 49, member a  275  Probe  Gene Symbol  C030R053  p-value  log2 FC  < 2e-50  6.2  Description  C147R039  NRN1  < 2e-50  3.9  neuritin 1  C018R152  ENO2  < 2e-50  5.3  enolase 2 (gamma, neuronal)  C020R047  PVALB  C040R152  < 2e-50  6.8  < 2e-50  3.8  parvalbumin, beta  C181R083  OLFM2  < 2e-50  3.1  olfactomedin 2  C133R076  GRM1  < 2e-50  3.6  glutamate  receptor,  metabotropic 1 C108R148  ABHD3  < 2e-50  3.9  abhydrolase containing  domainprotein  3 C122R047  < 2e-50  3.9  C259R105  CHST1  < 2e-50  4.8  zgc:100904  C254R126  NMNAT2  < 2e-50  4.5  nicotinamide mononucleotide adenylyltransferase 2  C172R099 C218R131  Pisd  < 2e-50  5.2  < 2e-50  3.8  phosphatidylserine decarboxylase  C239R092 C264R018  IRX5  < 2e-50  3.9  < 2e-50  3.9  iroquois homeobox protein 5  276  Probe  p-value  log2 FC  C043R045  < 2e-50  5.3  C152R147  < 2e-50  4.8  C191R049  < 2e-50  3.4  C228R053  < 2e-50  4  < 2e-50  3.1  C265R119  Gene Symbol  PFKP  Description  phosphofructokinase, platelet  C046R133  < 2e-50  3.3  C013R057  < 2e-50  6.5  < 2e-50  3.1  C125R108  TRIOBP  trio and f-actin binding protein  C156R017  < 2e-50  3.8  C225R065  < 2e-50  4.3  < 2e-50  3.2  C050R145  MARCH9  e3 ubiquitin-protein ligase march9  C133R094  SPOCK2  < 2e-50  3.9  testican-2 precursor  C016R024  GAD1  < 2e-50  4.3  glutamic  acid  decar-  boxylase C067R111  MBP  < 2e-50  6.9  C164R124  SCRT1  < 2e-50  3  myelin basic protein transcriptional  repres-  sor scratch 1 C205R130  DGAT1  < 2e-50  3.8  diacylglycerol  o-  acyltransferase homolog 1 (mouse)  277  Probe  Gene Symbol  C127R014 C081R096  SLC13A3  p-value  log2 FC  < 2e-50  6.3  < 2e-50  3.2  Description  solute 13  carrier  family  (sodium-dependent  dicarboxylate  trans-  porter), member 3 C239R067  TMEM178  < 2e-50  3.1  transmembrane protein 178 precursor  C225R010  < 2e-50  5.7  C069R056  < 2e-50  6.2  C044R088  < 2e-50  7.6  C109R059  < 2e-50  3.6  < 2e-50  4.6  < 2e-50  4.2  < 2e-50  5.1  C213R098  MAB21L1  C122R146 C007R108  NEUROD2  protein mab-21-like 1  neurogenic differentiation 2  C157R111  SOX1A  < 2e-50  4.3  transcription factor sox1a  C108R127 C016R034  GABRB1  < 2e-50  5.3  < 2e-50  3.4  gamma-aminobutyric acid receptor subunit beta-1 precursor  C089R051  < 2e-50  4.4  278  Probe C071R119  Gene Symbol  p-value  log2 FC  Description  ABCC5  < 2e-50  3.4  atp-binding  cassette,  sub-family c (cftr/mrp), member 5 C161R076 C238R019  NUDT9  < 2e-50  4.6  < 2e-50  3.6  adp-ribose  pyrophos-  phatase, mitochondrial precursor C215R081  AMPH  < 2e-50  4.7  amphiphysin  C035R050  CPNE2  < 2e-50  3.5  copine ii  C006R106  SAP130  < 2e-50  3.6  sin3a-associated  pro-  tein, 130kda C239R099  < 2e-50  3.2  C124R001  < 2e-50  5  C254R151  < 2e-50  5.7  < 2e-50  6.6  C252R135  NEUROD  neurogenic differentiation factor 1  C015R009  < 2e-50  3.3  C017R136  < 2e-50  4.7  C230R003  < 2e-50  3.2  < 2e-50  3.1  C213R015  SHANK2  sh3  and  multiple  ankyrin repeat domains protein 2 C113R169  SGCE  < 2e-50  3.2  sarcoglycan, epsilon  279  Probe C227R023  Gene Symbol  p-value  log2 FC  DHRS12  < 2e-50  7.7  Description dehydrogenase/reductase sdr family member 12  C142R152  < 2e-50  4.7  C062R043  CRIP2  < 2e-50  5.4  cysteine-rich protein 2  C126R005  CD209E  < 2e-50  3.4  cd209e antigen  < 2e-50  4.1  C043R054 C119R140  RUFY3  < 2e-50  3.3  protein rufy3  C058R106  SYBU  < 2e-50  4.5  syntabulin  C228R161  CASQ2  < 2e-50  3.7  calsequestrin 2 (cardiac muscle)  C103R043  ARVCF  < 2e-50  4  armadillo repeat gene deleted in velo-cardiofacial syndrome  C011R112  SEPT5  C070R061 C215R039  PPME1  < 2e-50  5.1  < 2e-50  3.8  < 2e-50  6.3  septin-5  protein  phosphatase  methylesterase 1 C188R161  PAX6  < 2e-50  4.3  paired  box  gene  (aniridia, keratitis)  280  6  Probe C214R148  Gene Symbol  p-value  log2 FC  TAC1  < 2e-50  4.6  Description tachykinin, precursor 1 (substance k, substance p, neurokinin 1, neurokinin 2, neuromedin l, neurokinin alpha, neuropeptide k, neuropeptide gamma)  C081R023  < 2e-50  6.7  C098R127  < 2e-50  3.2  C177R074  TSPAN3  < 2e-50  3.2  C035R007  SYT2  < 2e-50  4  synaptotagmin-2  C146R020  TUBB2A  < 2e-50  4.1  tubulin, beta 2a  C243R052  KIAA1409  < 2e-50  4.7  kiaa1409  < 2e-50  5.8  C195R099  tetraspanin 3  C254R049  TULP4  < 2e-50  3  tubby-related protein 4  C058R066  SV2B  < 2e-50  5.1  synaptic vesicle glycoprotein 2b  C224R121  < 2e-50  3.5  C007R052  < 2e-50  3.8  C247R128  CLDN19  < 2e-50  3.3  claudin 19  C238R146  CALR  < 2e-50  4.1  calreticulin  281  Probe C095R056  Gene Symbol  p-value  log2 FC  CNDP2  < 2e-50  8.1  Description cndp  dipeptidase  2  (metallopeptidase m20 family) C092R139  GABRA1  < 2e-50  5.6  gamma-aminobutyric acid (gaba) a receptor, alpha 1  C072R114  SPON2  < 2e-50  4.5  spondin 2, extracellular matrix protein  C134R108  CA10  < 2e-50  3.7  carbonic anhydrase x  C088R148  KIAA1409  < 2e-50  5.1  kiaa1409  C246R033  KIF1B  < 2e-50  3.1  kinesin-like  protein  kif1b C096R027  MAPK10  < 2e-50  4.1  mitogen-activated protein kinase 10  C231R031 C039R080  SLC2A3  < 2e-50  4.7  < 2e-50  4.7  glucose  transporter  type 3 C250R026  < 2e-50  4.3  C194R070  SMOX  < 2e-50  3.1  spermine oxidase  C079R121  DHRS12  < 2e-50  6.7  dehydrogenase/reductase sdr family member 12  C076R144  < 2e-50  4.4  C201R044  < 2e-50  3.3  282  Probe  Gene Symbol  C111R066 C220R133  TRPC1  p-value  log2 FC  < 2e-50  3.1  < 2e-50  4.8  Description  transient receptor potential cation channel, subfamily c, member 1  C161R139  NEUROD2  < 2e-50  4.9  neurogenic differentiation 2  C010R101  HAPLN2  < 2e-50  4.1  hyaluronan and proteoglycan link protein 2 precursor  C059R117  DPYSL5  < 2e-50  3.8  dihydropyrimidinaselike 5  C081R169  NMNAT2  < 2e-50  4.1  nicotinamide mononucleotide adenylyltransferase 2  C217R052  < 2e-50  5.2  C029R044  < 2e-50  3.2  < 2e-50  5.4  C248R051  RIMS2  regulating  synaptic  membrane exocytosis 2 C070R079 C227R089  NAPB  < 2e-50  4.4  < 2e-50  5.1  n-ethylmaleimidesensitive factor attachment protein, beta  C081R135  < 2e-50  3.2  283  Probe C047R163  Gene Symbol  p-value  log2 FC  SERPINI1  < 2e-50  3.3  Description serpin  peptidase  in-  hibitor, clade i (neuroserpin),  member  1 C230R038  FKBP1A  < 2e-50  3.7  fk506-binding  protein  1a C061R016  FAM49A  < 2e-50  3.5  family with sequence similarity 49, member a  C214R127  GAD1  < 2e-50  5.1  glutamic  acid  decar-  boxylase C082R083  KCNJ11  < 2e-50  3.1  potassium inwardly rectifying channel, subfamily j, member 11  C161R128  SEPT5  < 2e-50  3.3  septin-5  C195R007  ELAVL3  < 2e-50  3.1  elav-like protein 3  C066R090  NPTX1  < 2e-50  3.1  neuronal pentraxin 1  C249R165  < 2e-50  3.3  C118R008  < 2e-50  5.2  C080R077  < 2e-50  3.2  C233R139  < 2e-50  3.6  C080R126  < 2e-50  4.6  < 2e-50  4.7  C014R163  DYNC1I1  dynein, cytoplasmic 1, intermediate chain 1  284  Probe  Gene Symbol  C208R163 C029R017  NEUROD  p-value  log2 FC  < 2e-50  4.3  < 2e-50  4.5  Description  neurogenic differentiation factor 1  C096R147  < 2e-50  3.3  C261R058  < 2e-50  4.1  C069R041  < 2e-50  4.5  < 2e-50  3.3  C248R155  CPLX4  SC4MOL  complexin 4  sterol-c4-methyl oxidase-like  C087R018  WBSCR17  < 2e-50  3.2  williams-beuren drome  syn-  chromosome  region 17 C243R149  CBLN2  < 2e-50  5.9  cerebellin 2 precursor protein  C147R163  SEZ6L  < 2e-50  4.5  seizure related gene 6 (mouse)-like  C085R029  < 2e-50  3.1  C040R016  < 2e-50  4.1  < 2e-50  5.6  < 2e-50  3.8  < 2e-50  3.8  C006R052  < 2e-50  3.7  C145R144  < 2e-50  3.3  C092R160  < 2e-50  4.8  C140R010  CX43  C192R120 C072R135  ADK  connexin 43  adenosine kinase  285  Probe C009R042  Gene Symbol  p-value  log2 FC  SOX1A  < 2e-50  4  Description transcription factor sox1a  C220R146 C255R093  TAGLN3  C034R069 C082R032  SYBU  C007R036 C153R125  RGS7BPB  < 2e-50  3.6  < 2e-50  4.5  < 2e-50  4.2  < 2e-50  3  < 2e-50  4.9  < 2e-50  3.2  transgelin 3  syntabulin  regulator of g-protein signaling 7-binding protein b  C227R081  ANK3  < 2e-50  3.5  ankyrin 3, node of ranvier (ankyrin g)  C180R047  < 2e-50  3.1  C166R056  < 2e-50  3.2  C179R057  < 2e-50  3.3  < 2e-50  4  C078R052  ITM2C  integral membrane protein 2c  C248R160  TSPAN7  C169R012 C222R033  SCG2  < 2e-50  4  < 2e-50  3.5  < 2e-50  4.1  tetraspanin 7  secretogranin-2 precursor  286  Probe C230R023  Gene Symbol  p-value  log2 FC  FAM19A2  < 2e-50  4.2  Description family  with  quence 19  se-  similarity  (chemokine  (c-c  motif)-like), member a2 C108R116  < 2e-50  5.6  C153R128  < 2e-50  4.4  < 2e-50  3.9  C183R042  RAB3B  ras-related protein rab3b  C174R029  < 2e-50  3.7  C198R002  < 2e-50  4.1  < 2e-50  5.1  C154R104  < 2e-50  7.4  C211R158  < 2e-50  3.4  < 2e-50  3  < 2e-50  4.4  < 2e-50  4  C062R072  < 2e-50  6.1  C017R068  < 2e-50  4.8  < 2e-50  3.9  < 2e-50  3.3  C151R072  C068R088  STX1B  NLGN3  C143R123 C151R155  C139R018 C035R075  ENKUR  STX1B  syntaxin 1b2  neuroligin 3  enkurin  syntaxin 1b2  287  Probe C053R137  Gene Symbol  p-value  log2 FC  GNG3  < 2e-50  3.9  Description guanine  nucleotide-  binding  protein  g(i)/g(s)/g(o)  subunit  gamma-3 precursor C198R112  < 2e-50  3  C054R088  TUBB2A  < 2e-50  5.9  tubulin, beta 2a  C131R131  ZGC:86759  < 2e-50  3.3  zgc:86759  C013R048  CLDN6  < 2e-50  3.9  claudin 6  < 2e-50  4.7  C171R120 C074R155  NTNG2  < 2e-50  3.2  netrin-g2 precursor  C069R141  ATP1B4  < 2e-50  6.2  atpase,  (na+)/k+  transporting,  beta  polypeptide C161R004  < 2e-50  4.3  C166R013  < 2e-50  7.6  C138R083  < 2e-50  4.3  C060R145  < 2e-50  6.4  C048R151  < 2e-50  3.3  C222R012  < 2e-50  4  < 2e-50  3.6  < 2e-50  3.9  C225R082 C118R122  SCG3  SPECC1L  secretogranin iii  cytospin-a  288  4  Probe C162R036  Gene Symbol  p-value  log2 FC  KCNN2  < 2e-50  3.3  Description small  conductance  calcium-activated potassium  channel  protein 2 C176R161 C236R157  ZFYVE9  < 2e-50  8.7  < 2e-50  3  zinc finger, fyve domain containing 9  C218R084 C138R082  CBLN1  < 2e-50  6.3  < 2e-50  3.9  cerebellin 1 precursor protein  C087R167  < 2e-50  3.8  C060R022  < 2e-50  3.1  C051R011  FOXG1  < 2e-50  3.5  forkhead box protein g1  C085R092  GCY-31  < 2e-50  3.2  guanylyl cyclase  < 2e-50  4.5  < 2e-50  4.6  C255R142  < 2e-50  5.4  C120R004  < 2e-50  3.5  C062R125  < 2e-50  3.2  < 2e-50  4.3  C014R107 C231R106  C215R022  MLC1  GABRA1  membrane protein mlc1  gamma-aminobutyric acid (gaba) a receptor, alpha 1  C143R119  LOC396454  < 2e-50  5.4  purpurin  289  Probe  Gene Symbol  C098R070 C087R147  LGI1  p-value  log2 FC  < 2e-50  7.6  < 2e-50  3.1  Description  leucine-rich repeat lgi family, member 1  C180R064 C065R069  CELF4  < 2e-50  5.9  < 2e-50  3.4  cug-bp- and etr-3-like factor 4  C187R054  RCVRN  < 2e-50  5.4  recoverin  C265R068  NAPB  < 2e-50  3.7  n-ethylmaleimidesensitive factor attachment protein, beta  C075R025 C024R096  HPRT1  < 2e-50  3  < 2e-50  3.1  hypoxanthine nine  gua-  phosphoribosyl  transferase 1 C094R111 C154R168  TMEM59  < 2e-50  4.8  < 2e-50  3  transmembrane protein 59  C118R148  < 2e-50  5.1  C199R160  < 2e-50  3.2  C105R108  < 2e-50  3.2  < 2e-50  4.1  C244R145  MAP1B  microtubule-associated protein 1b  C244R033  < 2e-50  8  290  Probe C223R107  Gene Symbol  p-value  log2 FC  NCS1  < 2e-50  3.4  Description neuronal calcium sensor 1  C194R136  < 2e-50  7.7  C127R145  < 2e-50  4.6  C012R101  NPTX1  < 2e-50  3.9  neuronal pentraxin 1  C186R111  NDRG4  < 2e-50  3.2  ndrg4-prov protein  < 2e-50  4  < 2e-50  4.1  C216R055 C010R135  NECAP1  necap endocytosis associated 1  C229R117  NUDC  < 2e-50  6.3  nuclear gene  c  distribution homolog  nidulans) C145R160  < 2e-50  7.5  C150R117  < 2e-50  3.4  C255R010  < 2e-50  3.6  C187R164  < 2e-50  3.9  C068R092  < 2e-50  7.6  C066R112  < 2e-50  3.9  < 2e-50  3.5  < 2e-50  3.1  C120R032 C093R133  LMNB3  lamin-l(iii)  291  (a.  Probe C156R076  Gene Symbol  p-value  log2 FC  SLC1A2  < 2e-50  3.2  Description solute  carrier  family  1 (glial high affinity glutamate transporter), member 2 C134R102  RLBP1  < 2e-50  3.1  retinaldehyde  binding  protein 1 C043R134  KIF5A  < 2e-50  3.4  kinesin heavy chain isoform 5a  C259R093  ZIC2  < 2e-50  3.6  zic finger protein of the cerebellum 2  C157R025  RCVRN  < 2e-50  5.4  C197R084  < 2e-50  3.8  C130R117  < 2e-50  4.2  C223R057  < 2e-50  3.4  recoverin  C064R078  RCVRN  < 2e-50  5.2  recoverin  C136R121  RCVRN  3.97e-50  6  recoverin  4.41e-50  5.2  5.25e-50  6  1.59e-49  3.3  C155R067 C022R139  SAG  C260R113  s-arrestin  C263R115  CPNE2  1.62e-49  3.1  copine ii  C142R093  C1ORF187  1.99e-48  3.4  chromosome  1  open  reading frame 187 C238R062  MBP  4.19e-48  4.6  myelin basic protein  292  Probe  Gene Symbol  p-value  LMO1  1.05e-47  3.6  C249R164  8.09e-47  7.2  C240R080  1.29e-46  4.1  3.61e-46  3.3  1.77e-45  6.5  2.07e-45  3.3  C195R020  C094R102  STMN4  C136R144 C245R036  SLC32A1  log2 FC  Description lim domain only 1  stathmin-like 4  solute carrier family 32 (gaba vesicular transporter), member 1  C038R008  2.17e-45  6.4  C168R022  2.60e-45  4.3  C050R072  3.55e-45  6.4  C070R121  4.93e-44  3.9  5.54e-43  3.4  C017R056  GNAT  guanine binding  nucleotideprotein  g(t)  subunit alpha C085R028  7.71e-43  3.3  C112R112  1.11e-42  3.2  C232R096  2.67e-42  3.1  C094R002  4.80e-42  6.1  8.54e-42  3.6  C034R061  AP3B2  ap-3 complex subunit beta-2  C201R012  1.06e-41  3.2  C024R067  3.38e-41  3.6  293  Probe  Gene Symbol  C216R013  p-value  log2 FC  1.25e-40  3.8  3.23e-40  5.4  C176R097  2.33e-38  5.4  C007R158  4.15e-38  3.8  C217R076  6.39e-38  4.6  C039R132  2.90e-37  4.5  1.84e-36  3.5  2.19e-36  7.2  C063R092  C021R026  RCVRN  ZFP609  C110R043  Description  recoverin  zinc finger protein 609  C122R070  DPP10  3.46e-36  3.4  dipeptidyl-peptidase 10  C128R109  DYNLL2  5.38e-36  3.4  dynein light chain-2  C221R103  TUBA1B  3.18e-35  4.8  tubulin alpha-1b chain  9.02e-35  3.3  2.81e-34  3.9  C057R005 C151R042  TCIRG1  vacuolar proton translocating atpase 116 kda subunit a isoform 3  C105R092  3.39e-33  3.1  C243R085  3.62e-31  4.4  9.29e-30  3  C186R117  LECT2  leukocyte  cell-derived  chemotaxin 2 C189R164 C017R044  CBLN2  1.21e-28  3.5  1.75e-28  3.1  cerebellin 2 precursor protein  C215R086  MAB21L1  6.85e-28  3  protein mab-21-like 1  294  Probe  Gene Symbol  p-value  log2 FC  C118R084  1.44e-27  3  C120R113  4.85e-27  3.6  1.11e-26  3.7  2.31e-26  3.7  C241R115  OTX2  C260R042  Description  homeobox protein otx2  C125R076  DPP10  9.30e-26  3.2  dipeptidyl-peptidase 10  C211R042  HS3ST2  8.93e-25  3.4  heparan  sulfate  (glucosamine)  3-o-  sulfotransferase 2 C202R040  SCHIP1  2.89e-24  3.1  schwannomin interacting protein 1  C013R024  STX12  3.63e-24  3.1  syntaxin 12  C128R102  BETA3  2.25e-23  3.3  bhlh transcription factor beta3  C203R133 C174R047  HSPA4L  1.49e-22  4.3  4.33e-21  3.3  heat shock 70 kda protein 4l  C125R100  4.41e-20  3.4  C068R020  3.64e-19  3.1  2.12e-18  3.1  C246R126  AP2B1  adaptor-related protein complex 2, beta 1 subunit  C228R080 C175R058  PAX6A  3.31e-15  3.2  8.18e-15  3.5  paired box gene 6a  295  Probe  Gene Symbol  p-value  log2 FC  C209R049  4.91e-11  3.5  C019R065  5.92e-11  3.8  C039R142  6.27e-11  5.5  C097R101  1.67e-10  3.1  2.19e-10  3.2  C120R095  KIAA1467  Description  uncharacterized protein kiaa1467  C011R036  LGI1  5.05e-10  3.4  leucine-rich repeat lgi family, member 1  C136R154  CCDC92  5.21e-10  5  C025R093  4931408A02RIK  2.50e-07  3.7  limkain beta 2 uncharacterized protein c21orf63 homolog precursor  C219R086  3.49e-07  3.1  C026R064  1.66e-06  3.7  1.72e-06  4  C170R059  STMN1  stathmin 1/oncoprotein 18  C240R030  SCN3B  3.71e-05  3.7  sodium  channel,  voltage-gated,  type  iii, beta C068R133  CRX-B  0.00326  3.3  homeobox protein otx5b  C148R068  DENND5B  0.00563  3  rab6ip1-like protein  C181R017  DPP10  0.00585  3  dipeptidyl-peptidase 10  296  B.2  Gill-Specific Probes Probe  C011R008  Gene Symbol  p-value  log2 FC  CLDN4  < 2e-50  5.60  < 2e-50  4.10  C016R144  Description claudin-4  C023R110  EPS8L1  < 2e-50  4.60  eps8-like 1  C027R077  Pip5kl1  < 2e-50  4.00  phosphatidylinositol-4phosphate 5-kinase-like 1  C028R051  CLDN4  C028R073 C031R044  AGR3  < 2e-50  5.60  < 2e-50  5.00  < 2e-50  6.20  claudin-4  breast  cancer  mem-  brane protein 11 C035R056 C041R097  PLEC  C048R165 C050R132  ARPC1A  < 2e-50  7.40  < 2e-50  5.40  < 2e-50  4.70  < 2e-50  4.40  plectin-1  actin  related  protein  2/3 complex, subunit 1a, 41kda C071R015  SPINT2  < 2e-50  5.10  serine hibitor,  protease kunitz  2 C073R062  < 2e-50  7.30  C073R075  < 2e-50  4.50  297  intype  Probe  p-value  log2 FC  C074R021  < 2e-50  4.70  C094R012  < 2e-50  5.40  < 2e-50  5.70  C094R118  Gene Symbol  GCM2  Description  glial cells missing homolog (drosophila), related sequence 2  C096R013  < 2e-50  4.50  C098R102  < 2e-50  7.10  C099R099  < 2e-50  6.80  C110R009  < 2e-50  3.80  C116R009  < 2e-50  3.80  < 2e-50  5.70  < 2e-50  4.90  C121R058  CLDN4  C121R166  claudin-4  C124R044  CLDN4  < 2e-50  5.70  claudin-4  C128R004  PTGIS  < 2e-50  3.90  prostacyclin synthase  < 2e-50  5.10  < 2e-50  3.90  C143R062 C149R016  CAPN2  calpain 2, (m/ii) large subunit  C149R022  CLDN4  C169R119  < 2e-50  7.80  < 2e-50  5.00  claudin-4  C170R054  ARAP1  < 2e-50  3.70  centaurin-delta-2  C176R143  ELF3  < 2e-50  4.40  e74-like factor 3  C177R004  BCL10  < 2e-50  3.30  b-cell leukemia/lymphoma 10  298  Probe  Gene Symbol  p-value  log2 FC  C178R006  CAPNS1  < 2e-50  3.30  calpain, small subunit 1  C181R011  ZGC:91985  < 2e-50  5.00  zgc:91985  C183R016  CLDN4  < 2e-50  5.40  claudin-4  < 2e-50  7.40  < 2e-50  5.40  C189R067 C191R034  KLF4  Description  kruppel-like  factor  4  (gut) C191R068  S100A11  < 2e-50  8.60  s100 calcium binding protein  a11  (calgiz-  zarin) C202R005  EPCAM  < 2e-50  5.70  tumor-associated  cal-  cium signal transducer 1 precursor C208R144  < 2e-50  3.70  C213R120  < 2e-50  8.00  < 2e-50  6.80  C232R052  < 2e-50  5.20  C233R057  < 2e-50  8.00  C233R106  < 2e-50  6.90  C240R137  < 2e-50  4.90  C242R062  < 2e-50  4.00  C229R078  CLDN3  claudin 3  C248R016  FAM3C  < 2e-50  5.30  protein fam3c precursor  C249R064  DNASE1L3  < 2e-50  3.30  deoxyribonuclease i-like 3  299  Probe C249R077  Gene Symbol  p-value  log2 FC  GPR116  < 2e-50  7.50  Description g protein-coupled receptor 116  C253R088  DNASE1L3  < 2e-50  6.60  deoxyribonuclease i-like 3  C254R061  < 2e-50  7.40  C260R133  < 2e-50  7.70  < 2e-50  6.90  C215R002  TPSG1  tryptase gamma precursor  C184R075  FAM3C  < 2e-50  5.60  C107R021  < 2e-50  4.90  C184R024  < 2e-50  3.40  protein fam3c precursor  C166R069  UPK1A  < 2e-50  4.80  uroplakin-1a  C149R049  SPINT1  < 2e-50  4.10  serine  peptidase  hibitor,  kunitz  intype  1 C044R118  LRRC8E  < 2e-50  4.00  leucine-rich  repeat-  containing  protein  8e C010R128  AHNAK  < 2e-50  5.50  ahnak  nucleoprotein  (desmoyokin) C115R060  < 2e-50  4.90  C119R134  < 2e-50  4.50  300  Probe C059R082  Gene Symbol  p-value  log2 FC  SFT2D2  < 2e-50  4.40  Description sft2 domain containing 2  C157R084  < 2e-50  6.40  C175R003  < 2e-50  6.20  C248R077  < 2e-50  6.60  C182R143  < 2e-50  5.40  C246R012  HTRA1  < 2e-50  4.30  htra serine peptidase 1  C221R069  DNASE1L3  < 2e-50  5.80  deoxyribonuclease i-like 3  C061R108  CLDN4  < 2e-50  5.80  claudin-4  C253R104  RHBDL2  < 2e-50  3.70  rhomboid, veinlet-like 2 (drosophila)  C108R040  ITPKA  < 2e-50  4.60  inositol  1,4,5-  trisphosphate 3-kinase a C103R143  < 2e-50  3.70  C237R020  < 2e-50  4.30  < 2e-50  5.10  C240R073  NFKBIZ  nf-kappa-b  inhibitor  zeta C195R152  SCEL  < 2e-50  7.10  sciellin  C196R049  CAPNS1  < 2e-50  4.00  calpain, small subunit 1  C128R096  < 2e-50  5.20  C038R055  < 2e-50  4.10  301  Probe C081R083  Gene Symbol  p-value  log2 FC  DNASE1L3  < 2e-50  6.20  Description deoxyribonuclease i-like 3  C102R134  CLDN4  < 2e-50  6.60  C119R025  < 2e-50  3.40  C127R031  < 2e-50  4.40  claudin-4  C203R062  SCEL  < 2e-50  7.00  sciellin  C197R110  RHBDL2  < 2e-50  3.50  rhomboid, veinlet-like 2 (drosophila)  C179R010  MYL9  < 2e-50  3.90  myosin, light polypeptide 9, regulatory  C107R065  DNASE1L3  < 2e-50  6.00  deoxyribonuclease i-like 3  C099R075  KRT8|KRT8  C119R108 C055R075  CLDN7B  < 2e-50  5.60  < 2e-50  3.90  < 2e-50  4.40  keratin 8|keratin 8  claudin-like  protein  zf4a22 C185R154  DNASE1L3  < 2e-50  6.10  deoxyribonuclease i-like 3  C014R030  TMEM30B  < 2e-50  4.70  transmembrane protein 30b  C027R159  IQGAP1  < 2e-50  3.70  iq motif containing gtpase activating protein 1  302  Probe  p-value  log2 FC  C209R060  < 2e-50  3.70  C058R169  < 2e-50  4.70  C251R145  < 2e-50  3.80  < 2e-50  4.70  C189R133  Gene Symbol  ANKRD22  Description  ankyrin repeat domain 22  C107R061  < 2e-50  3.70  C167R169  SCEL  < 2e-50  6.80  sciellin  C201R005  KRT8|KRT8  < 2e-50  6.00  keratin 8|keratin 8  C031R135  BCL2L12  < 2e-50  4.40  bcl-2-related  proline-  rich protein C099R073  < 2e-50  5.50  C224R065  EVPL  < 2e-50  5.80  envoplakin  C075R036  EVPL  < 2e-50  8.10  envoplakin  < 2e-50  5.40  < 2e-50  5.90  C111R127 C015R133  LGALS4  l-36 lactose binding protein  C028R047  ZGC:92849  < 2e-50  4.70  ras-related  and  estrogen-regulated growth  inhibitor-like  protein C025R047  PSD4  < 2e-50  4.30  pleckstrin and sec7 domain containing 4  C256R062  < 2e-50  4.70  303  Probe  Gene Symbol  p-value  log2 FC  C234R106  < 2e-50  7.30  C123R054  < 2e-50  6.40  Description  C158R121  CAPNS1  < 2e-50  4.00  calpain, small subunit 1  C086R035  CLDN4  < 2e-50  6.00  claudin-4  C165R074  RNF222  < 2e-50  4.00  ring  finger  protein  loc643904 homolog C110R016  DLX5A  < 2e-50  3.80  distal-less  homeobox  gene 5a C065R048  < 2e-50  5.40  C113R047  < 2e-50  6.90  C247R155  < 2e-50  5.10  C205R098  < 2e-50  6.90  C013R063  < 2e-50  4.10  < 2e-50  7.50  C155R133  GIMAP7  gtpase,  imap  family  member 7 C221R004  TSPAN15  < 2e-50  3.90  tetraspanin-15  C235R050  PRSS27  < 2e-50  6.50  protease, serine 27  < 2e-50  5.80  < 2e-50  3.70  C235R127 C176R099  LRRC8E  leucine-rich  repeat-  containing  protein  8e  304  Probe C090R026  Gene Symbol  p-value  log2 FC  Description  PSMB7  < 2e-50  3.50  proteasome  (prosome,  macropain)  subunit,  beta type 7 C229R149  < 2e-50  7.50  C130R161  < 2e-50  6.50  < 2e-50  5.50  C073R127  MAL  mal, t-cell differentiation protein  C095R053  GDPD3  < 2e-50  5.60  glycerophosphodiester phosphodiesterase domain-containing protein 3  C042R123 C026R019  GLO1  C100R093  < 2e-50  4.20  < 2e-50  5.00  < 2e-50  7.20  glyoxylase 1  C259R082  PAX1  < 2e-50  5.30  paired box gene 1  C130R106  IQGAP1  < 2e-50  3.70  iq motif containing gtpase activating protein 1  C130R020  MRC2  < 2e-50  5.30  mannose  receptor,  type 2 C265R141  < 2e-50  4.20  C209R131  < 2e-50  5.30  C033R122  < 2e-50  5.40  305  c  Probe C066R083  Gene Symbol  p-value  log2 FC  Description  CLDN7B  < 2e-50  4.30  claudin-like  protein  zf4a22 C054R107  KCNJ10  < 2e-50  5.50  atp-sensitive rectifier  inward potassium  channel 10 C183R073  < 2e-50  4.20  C146R047  MYOF  < 2e-50  4.90  myoferlin  C243R106  PSMB6  < 2e-50  3.00  proteasome  (prosome,  macropain)  subunit,  beta type, 6 C125R030  < 2e-50  3.70  C137R043  < 2e-50  6.90  < 2e-50  5.50  < 2e-50  6.30  < 2e-50  5.20  C151R100  KRT8|KRT8  C067R138 C131R048  DHRS13  keratin 8|keratin 8  riken cdna 2610209n15 gene  C241R013  CLDND  < 2e-50  5.20  C155R070  < 2e-50  7.40  C199R053  < 2e-50  3.70  C085R169  < 2e-50  3.20  C244R015  < 2e-50  5.10  C168R146  < 2e-50  3.70  claudin d  306  Probe C062R106  Gene Symbol  p-value  log2 FC  FERMT1  < 2e-50  4.00  Description fermitin family homolog 1  C021R014  UPK3B  < 2e-50  5.60  uroplakin-3b precursor  C182R151  PTGR1  < 2e-50  3.40  nadp-dependent leukotriene  b4  12-  hydroxydehydrogenase C112R086 C072R036  PSMB6  < 2e-50  5.10  < 2e-50  3.70  proteasome  (prosome,  macropain)  subunit,  beta type, 6 C070R046 C068R024  SLC37A1  < 2e-50  6.80  < 2e-50  3.60  solute carrier family 37 (glycerol-3-phosphate transporter), member 1  C256R160  < 2e-50  3.80  C229R157  < 2e-50  4.00  < 2e-50  6.60  C102R035  OSBPL6  oxysterol  binding  protein-like 6 C099R032 C209R096  EXOC3L2  < 2e-50  5.30  < 2e-50  4.50  exocyst complex component 3-like protein 2  C026R076  KRT8|KRT8  < 2e-50  6.80  keratin 8|keratin 8  307  Probe C129R124  Gene Symbol  p-value  log2 FC  Description  PSMB7  < 2e-50  3.00  proteasome  (prosome,  macropain)  subunit,  beta type 7 C163R007  < 2e-50  5.60  C061R147  < 2e-50  4.60  C182R096  < 2e-50  5.50  < 2e-50  5.90  C146R100  < 2e-50  4.70  C216R048  < 2e-50  3.30  C113R092  < 2e-50  4.70  < 2e-50  5.40  C067R005  C215R012  PRSS27  DEGS2  protease, serine 27  sphingolipid  delta(4)-  desaturase/c4hydroxylase des2 C098R154  FOXC1  < 2e-50  3.10  forkhead box c1  C087R166  RAB11A  < 2e-50  4.80  ras-related  protein  rab11 C251R085  < 2e-50  7.20  C210R135  < 2e-50  4.40  C023R047  < 2e-50  4.00  C249R073  PAX1  < 2e-50  5.50  paired box gene 1  C237R094  TRIM16|TRIM16  < 2e-50  5.20  tripartite  motif-  containing 16|tripartite motif-containing 16  308  Probe C028R108  Gene Symbol  p-value  log2 FC  RHBG  < 2e-50  7.00  Description rhesus blood group, b glycoprotein  C088R080  DLX4B  < 2e-50  5.50  distal-less  homeobox  gene 4b C230R136  < 2e-50  6.90  C088R076  < 2e-50  3.50  < 2e-50  5.30  C072R067  < 2e-50  4.20  C066R027  < 2e-50  6.60  C213R063  < 2e-50  4.00  < 2e-50  3.20  C221R077  C163R063  CLDN8  FERMT3  claudin 8  fermitin family homolog 3  C092R061 C095R081  RHBG  < 2e-50  4.30  < 2e-50  7.10  rhesus blood group, b glycoprotein  C214R028 C010R038  DNASE1L3  < 2e-50  3.90  < 2e-50  5.90  deoxyribonuclease i-like 3  C173R131 C139R061  RGS5  < 2e-50  6.60  < 2e-50  5.80  regulator of g-protein signalling 5  C215R145  < 2e-50  3.60  309  Probe C039R114  Gene Symbol  p-value  log2 FC  GSN  < 2e-50  5.30  Description gelsolin  (amyloidosis,  finnish type) C150R156  RHBDD1  < 2e-50  5.80  rhomboid  domain-  containing  protein  1 C082R105  LCP2  < 2e-50  3.10  lymphocyte  cytosolic  protein 2 (sh2 domain containing  leukocyte  protein of 76kda) C097R059 C067R010  OCLN  C049R092 C152R061  HES1  < 2e-50  3.30  < 2e-50  4.30  < 2e-50  3.50  < 2e-50  3.20  occludin  hairy and enhancer of split 1, (drosophila)  C196R037  < 2e-50  8.80  C012R041  < 2e-50  4.60  < 2e-50  5.30  < 2e-50  5.20  < 2e-50  3.40  C244R012  TBX1  C205R145 C084R011  DEGS2  t-box 1  sphingolipid  delta(4)-  desaturase/c4hydroxylase des2 C067R059  CAPN5  < 2e-50  4.70  calpain 5  C076R113  TGM5  < 2e-50  4.30  transglutaminase 5  310  Probe C203R087  Gene Symbol  p-value  log2 FC  GSN  < 2e-50  5.10  Description gelsolin  (amyloidosis,  finnish type) C261R014 C125R133  SPINT1  < 2e-50  3.00  < 2e-50  5.10  serine  peptidase  hibitor,  in-  kunitz  type  1 C020R092  ANXA2-A  < 2e-50  3.80  annexin a2-a  C106R040  TPRG1L  < 2e-50  4.30  tumor  protein  regulated  gene  p631-like  protein C098R068  < 2e-50  5.50  C075R165  < 2e-50  3.80  C235R167  < 2e-50  7.20  C186R068  < 2e-50  7.10  C006R029  AIM1  < 2e-50  5.40  absent in melanoma 1  C092R028  PRSS27  < 2e-50  7.00  protease, serine 27  C107R047  PLOD3  < 2e-50  6.90  procollagen-lysine, 2-oxoglutarate  5-  dioxygenase 3 C215R146  CLDN8  C203R084 C184R135  ITGAE  < 2e-50  5.90  < 2e-50  5.00  < 2e-50  3.30  claudin 8  integrin,  alpha  epithelial-associated  311  e,  Probe C232R023  Gene Symbol  p-value  log2 FC  VAMP8  < 2e-50  4.60  Description vesicle-associated membrane protein 8  C126R169  FAM3C  < 2e-50  4.50  protein fam3c precursor  C053R114  DMRTA1  < 2e-50  5.40  doublesex- and mab3-related transcription factor a1  C048R158  SCEL  C063R163 C163R148  GSN  < 2e-50  6.90  < 2e-50  4.10  < 2e-50  5.30  sciellin  gelsolin  (amyloidosis,  finnish type) C075R127  TTC22  < 2e-50  3.70  tetratricopeptide repeat protein 22  C048R068  < 2e-50  3.70  C038R037  < 2e-50  6.80  C235R149  < 2e-50  6.50  < 2e-50  4.00  C119R059  BTK  bruton  agammaglobu-  linemia tyrosine kinase C118R056  < 2e-50  3.90  C209R095  < 2e-50  6.50  < 2e-50  3.50  C089R049  GGH  gamma-glutamyl drolase  hy-  (conjugase,  folylpolygammaglutamyl hydrolase)  312  Probe  Gene Symbol  C204R072 C122R041  BTN2A1  p-value  log2 FC  < 2e-50  3.00  < 2e-50  3.80  Description  butyrophilin subfamily 2 member a1 precursor  C068R123  < 2e-50  7.00  C125R087  < 2e-50  4.10  C021R032  < 2e-50  5.20  < 2e-50  4.40  C079R021  MUC5B  RAMP1  mucin-5b precursor  receptor (calcitonin) activity modifying protein 1  C053R014  < 2e-50  6.10  C124R072  < 2e-50  3.60  C134R125  < 2e-50  5.60  C161R157  < 2e-50  4.20  < 2e-50  4.80  < 2e-50  6.60  < 2e-50  3.30  C127R170  EHF  C247R041 C028R057  C20ORF118  ets homologous factor  uncharacterized protein c20orf118  C125R148  < 2e-50  7.10  C092R144  < 2e-50  4.60  C134R006  < 2e-50  5.70  < 2e-50  3.60  C216R141  PSMB7  proteasome  (prosome,  macropain)  subunit,  beta type 7  313  Probe C215R130  Gene Symbol  p-value  log2 FC  RAB25  < 2e-50  4.60  Description rab25,  member  ras  oncogene family C070R056  TACSTD2  < 2e-50  4.50  tumor-associated  cal-  cium signal transducer 2 C231R067  < 2e-50  4.90  C173R103  < 2e-50  7.20  C260R140  < 2e-50  7.00  < 2e-50  6.00  C124R148  MAL  mal, t-cell differentiation protein  C158R098  RHBDL2  < 2e-50  4.00  rhomboid, veinlet-like 2 (drosophila)  C212R121  RGS5  < 2e-50  3.10  regulator of g-protein signalling 5  C117R018  PRRG2  < 2e-50  3.70  proline-rich  gla  carboxyglutamic  (gacid)  polypeptide 2 C159R008  RGS5  < 2e-50  3.00  regulator of g-protein signalling 5  C027R083  < 2e-50  3.70  C161R007  < 2e-50  3.60  C120R057  < 2e-50  4.60  C235R027  < 2e-50  6.80  314  Probe  Gene Symbol  C051R143 C237R112  NADK  C212R077  p-value  log2 FC  < 2e-50  7.30  < 2e-50  4.20  < 2e-50  4.00  Description  nad kinase  C138R056  EVPL  < 2e-50  5.60  envoplakin  C059R002  TAGLN  < 2e-50  3.80  transgelin  < 2e-50  4.40  C266R047 C186R031  FOXF2  < 2e-50  4.00  forkhead box protein f2  C161R073  CLDN4  < 2e-50  4.70  claudin-4  C026R123  PARP15  < 2e-50  3.50  poly (adp-ribose) polymerase family, member 15  C266R120  < 2e-50  4.80  C177R113  SYTL4  < 2e-50  3.30  synaptotagmin-like 4  C176R144  DNASE1L3  < 2e-50  5.30  deoxyribonuclease i-like 3  C138R150 C180R042  5730559C18RIK  < 2e-50  3.30  < 2e-50  4.50  uncharacterized protein c1orf106 homolog  C011R085  CA12  < 2e-50  6.90  carbonic anhydrase xii  C170R117  MYH9  < 2e-50  7.00  myosin, heavy polypeptide 9, non-muscle  C035R080 C176R004  ARAP1  < 2e-50  3.10  < 2e-50  3.20  centaurin-delta-2  315  Probe C246R138  Gene Symbol  p-value  log2 FC  TACSTD2  < 2e-50  4.40  Description tumor-associated  cal-  cium signal transducer 2 C063R030  TACSTD2  < 2e-50  4.70  tumor-associated  cal-  cium signal transducer 2 C006R036 C031R035  MCTP2  < 2e-50  4.60  < 2e-50  4.30  multiple c2 and transmembrane  domain-  containing  protein  2 C181R094 C114R119  CXCR4  < 2e-50  4.70  < 2e-50  3.80  chemokine (c-x-c motif) receptor 4  C058R147  CAPN9  < 2e-50  6.90  calpain 9  C262R100  PLOD3  < 2e-50  6.40  procollagen-lysine, 2-oxoglutarate  5-  dioxygenase 3 C217R121  < 2e-50  8.30  C214R135  < 2e-50  7.30  < 2e-50  5.20  C116R098  COL10A1  collagen, type x, alpha 1(schmid metaphyseal chondrodysplasia)  316  Probe  p-value  log2 FC  C040R125  < 2e-50  4.70  C225R020  < 2e-50  6.90  < 2e-50  5.90  C248R032  Gene Symbol  SLC9A3  Description  solute carrier family 9, member 3  C033R059 C184R018  COL10A1  < 2e-50  4.10  < 2e-50  5.20  collagen, type x, alpha 1(schmid metaphyseal chondrodysplasia)  C169R129  CAPG  < 2e-50  6.30  capping protein (actin filament), gelsolin-like  C026R092  < 2e-50  4.00  C203R162  < 2e-50  6.30  C200R148  < 2e-50  3.40  C101R033  < 2e-50  3.30  C066R127  < 2e-50  4.60  < 2e-50  3.40  C115R009  ELOVL7  elongation of very long chain fatty acids protein 7  C161R058  < 2e-50  6.80  C167R089  < 2e-50  5.50  < 2e-50  5.10  C106R076  RGS2  regulator of g-protein signalling 2, 24kda  C018R055  < 2e-50  5.10  317  Probe  Gene Symbol  C099R030 C152R035  CLDN4  C173R073 C252R015  slc4a1  p-value  log2 FC  < 2e-50  5.50  < 2e-50  5.10  < 2e-50  3.60  < 2e-50  5.40  Description  claudin-4  solute 4,  carrier  anion  family  exchanger,  member 1 (erythrocyte membrane protein band 3, diego blood group) C038R045  < 2e-50  3.40  C153R133  < 2e-50  5.30  C189R084  < 2e-50  5.20  < 2e-50  3.40  C028R125  GDPD2  glycerophosphodiester phosphodiesterase domain containing 2  C048R157  LYVE1  < 2e-50  3.80  extra  cellular  link  domain-containing 1 C127R028  < 2e-50  4.70  C119R014  KRT20  < 2e-50  6.90  keratin 20  C251R046  PRSS27  < 2e-50  6.30  protease, serine 27  C089R077  ANXA2  < 2e-50  4.30  annexin a2  C012R016  ANKRD22  < 2e-50  3.60  ankyrin repeat domain 22  C161R117  < 2e-50  7.60  318  Probe  Gene Symbol  C147R127 C070R013  GLO1  C223R026 C142R063  ABCB9  p-value  log2 FC  < 2e-50  4.40  < 2e-50  4.50  < 2e-50  4.00  < 2e-50  3.30  Description  glyoxylase 1  atp-binding  cassette,  sub-family b (mdr/tap), member 9 C048R101 C110R033  CNOT10  < 2e-50  4.90  < 2e-50  3.50  ccr4-not  transcription  complex subunit 10 C228R005  GPR116  < 2e-50  4.40  g protein-coupled receptor 116  C110R116 C034R076  TAGLN  C023R125 C169R168  ALOX12B  < 2e-50  7.00  < 2e-50  3.90  < 2e-50  5.40  < 2e-50  4.70  transgelin  arachidonate  12-  lipoxygenase, 12r type C047R008  AHCYL2  < 2e-50  4.40  putative adenosylhomocysteinase 3  C217R069  RHAG  < 2e-50  4.20  rh-associated glycoprotein  C196R170  MAL  < 2e-50  6.30  mal, t-cell differentiation protein  C120R150  SH2D1A  < 2e-50  5.50  sh2 domain protein 1a  319  Probe  p-value  log2 FC  C022R106  < 2e-50  5.50  C226R077  < 2e-50  6.50  < 2e-50  6.60  C032R089  < 2e-50  5.90  C027R047  < 2e-50  3.70  < 2e-50  3.70  C113R034  C041R152  Gene Symbol  CAPN9  RAMP1  Description  calpain 9  receptor (calcitonin) activity modifying protein 1  C080R142 C213R165  RHOF  < 2e-50  4.50  < 2e-50  3.20  ras homolog gene family, member f  C225R114  MSLNL  < 2e-50  6.00  mesothelin-like protein precursor  C112R030  FCGBP  < 2e-50  5.60  fc fragment of igg binding protein  C060R062  GPR109A  < 2e-50  3.70  g protein-coupled receptor 109a  C151R114 C059R006  COL10A1  < 2e-50  5.70  < 2e-50  4.60  collagen, type x, alpha 1(schmid metaphyseal chondrodysplasia)  C206R118  < 2e-50  5.60  320  Probe C141R153  Gene Symbol  p-value  log2 FC  RGS2  < 2e-50  4.10  Description regulator of g-protein signalling 2, 24kda  C041R105 C145R139  FCGBP  < 2e-50  3.60  < 2e-50  3.30  fc fragment of igg binding protein  C132R128  < 2e-50  4.70  < 2e-50  4.80  C236R043  < 2e-50  4.60  C198R087  < 2e-50  3.00  C007R139  < 2e-50  4.80  C137R126  < 2e-50  3.90  C094R166  < 2e-50  5.00  C021R108  MEFV  mediterranean fever  C035R139  CLDN4  < 2e-50  4.40  claudin-4  C193R133  RAB11FIP2  < 2e-50  3.00  rab11 family interacting protein 2 (class i)  C061R057  PRRG4  < 2e-50  4.80  transmembrane gammacarboxyglutamic  acid  protein 4 precursor C134R086  ACTA2  < 2e-50  3.40  actin, alpha 2, smooth muscle, aorta  C166R125  < 2e-50  4.20  C196R058  < 2e-50  3.70  321  Probe  Gene Symbol  C121R057 C037R009  SGK2  p-value  log2 FC  < 2e-50  3.90  < 2e-50  3.40  Description  serum/glucocorticoid regulated kinase 2  C224R007 C082R137  CA4  < 2e-50  3.90  < 2e-50  8.80  carbonic anhydrase 4 precursor  C246R120  CLDN4  < 2e-50  4.60  C179R108  < 2e-50  3.30  C038R017  < 2e-50  5.00  C062R008  < 2e-50  7.40  claudin-4  C047R095  PRKCH  < 2e-50  4.20  protein kinase c, eta  C215R090  EVPL  < 2e-50  5.20  envoplakin  < 2e-50  3.50  < 2e-50  3.60  C153R144 C153R160  TMEM30B  transmembrane protein 30b  C114R127  < 2e-50  7.80  C161R063  < 2e-50  4.80  C068R148  < 2e-50  3.10  < 2e-50  4.50  C058R059  TBC1D24  tbc1  domain  member 24 C243R057 C261R130  CERK  < 2e-50  4.20  < 2e-50  3.20  ceramide kinase  322  family  Probe C092R126  Gene Symbol  p-value  log2 FC  RGS2  < 2e-50  4.60  Description regulator of g-protein signalling 2, 24kda  C089R015  GPRC6A  < 2e-50  3.70  g-protein coupled receptor family c group 6 member a precursor  C236R062  IFI44  < 2e-50  3.60  interferon-induced protein 44  C130R073  KRT8|KRT8  < 2e-50  5.60  keratin 8|keratin 8  C165R007  NEK1  < 2e-50  4.70  nima (never in mitosis gene a)-related kinase 1  C087R008 C103R050  ZC3H15  < 2e-50  5.30  < 2e-50  6.40  likely ortholog of mouse immediate sponse,  early  re-  erythropoietin  4 C165R057 C041R167  PECAM1  < 2e-50  3.30  < 2e-50  3.50  platelet/endothelial cell adhesion molecule (cd31 antigen)  C134R144  GRHL1  < 2e-50  3.40  grainyhead-like protein 1 homolog  323  Probe C174R006  Gene Symbol  p-value  log2 FC  ART1  < 2e-50  4.60  Description gpi-linked  nad(p)(+)–  arginine  adp-  ribosyltransferase  1  precursor C141R115  < 2e-50  3.40  C233R015  < 2e-50  5.60  C130R166  < 2e-50  3.80  < 2e-50  3.30  C137R107  GREM1  gremlin 1 homolog, cysteine knot superfamily (xenopus laevis)  C157R087 C087R070  TNNI1  < 2e-50  3.70  < 2e-50  3.40  troponin i, skeletal, slow 1  C262R050  S100A1  < 2e-50  5.00  s100 calcium binding protein a1  C222R103  DNASE1L3  < 2e-50  3.60  deoxyribonuclease i-like 3  C191R096  CAPN9  < 2e-50  4.70  calpain 9  C030R042  ABCB1B  < 2e-50  6.10  atp-binding  cassette,  sub-family b (mdr/tap), member 1b C220R018  < 2e-50  3.30  324  Probe C085R130  Gene Symbol  p-value  log2 FC  SPINT1  < 2e-50  3.90  Description serine hibitor,  peptidase kunitz  intype  1 C168R092  < 2e-50  5.40  C021R111  < 2e-50  4.50  C077R062  < 2e-50  4.10  C150R130  < 2e-50  3.80  C223R094  < 2e-50  4.00  C067R128  < 2e-50  3.90  C072R001  DBNL  < 2e-50  4.30  drebrin-like  C225R123  CD276  < 2e-50  4.40  cd276 antigen  C009R091  FBLN1  < 2e-50  4.70  fibulin 1  < 2e-50  3.20  < 2e-50  3.40  C092R081 C043R149  GJB3  gap junction beta-3 protein  C077R022  RAMP1  < 2e-50  3.50  receptor (calcitonin) activity modifying protein 1  C134R038 C234R033  SPINT2  < 2e-50  3.90  < 2e-50  4.60  serine hibitor,  protease kunitz  2  325  intype  Probe C151R003  Gene Symbol  p-value  log2 FC  TRIM16|TRIM16  < 2e-50  3.30  Description tripartite  motif-  containing 16|tripartite motif-containing 16 C119R115  PITX1  < 2e-50  3.10  pituitary homeobox 1  C140R008  FOXQ1  < 2e-50  3.70  forkhead box q1  C193R122  LCK  < 2e-50  3.50  lymphocyte-specific protein tyrosine kinase  C043R057  TNNI1  < 2e-50  3.30  troponin i, skeletal, slow 1  C026R060  WAS  < 2e-50  3.20  wiskott-aldrich  syn-  drome protein C050R020  < 2e-50  5.20  < 2e-50  6.80  C141R025  < 2e-50  3.20  C051R015  < 2e-50  4.50  < 2e-50  3.10  C152R082  C264R144  MPO  LITAF  myeloperoxidase  lipopolysaccharideinduced tnf factor  C021R083  KRT8|KRT8  < 2e-50  6.40  keratin 8|keratin 8  C040R079  CLDN5  < 2e-50  4.90  claudin 5  C082R079  < 2e-50  3.90  C040R022  < 2e-50  3.90  < 2e-50  4.00  C055R137  ZAP70  zeta-chain (tcr) associated protein kinase  326  Probe  p-value  log2 FC  C263R081  < 2e-50  3.40  C130R095  < 2e-50  3.70  C208R056  < 2e-50  3.30  < 2e-50  3.80  C060R081  Gene Symbol  C1QTNF9  Description  spermatogenesis associated 13  C032R100  MPO  C210R076 C115R102  LDLRAP1  < 2e-50  4.20  < 2e-50  3.90  < 2e-50  3.90  myeloperoxidase  low density lipoprotein receptor adaptor protein 1  C162R093  ZNF217  C211R123 C080R104  SPINT1  < 2e-50  4.30  < 2e-50  3.40  < 2e-50  3.80  zinc finger protein 217  serine  peptidase  hibitor,  kunitz  intype  1 C103R049 C042R155  ANG  < 2e-50  5.60  < 2e-50  6.10  angiogenin,  ribonucle-  ase a family, member 1 C245R152 C187R046  MSLNL  < 2e-50  3.90  < 2e-50  4.60  mesothelin-like protein precursor  C042R122  < 2e-50  4.40  327  Probe C217R104  Gene Symbol  p-value  log2 FC  TWIST2  < 2e-50  3.80  Description twist  homolog  2  (drosophila) C106R090  < 2e-50  4.50  C162R077  < 2e-50  6.80  C212R001  < 2e-50  5.10  < 2e-50  3.10  C134R079  TSPAN1  similar to tetraspanin-1 (tspan-1) net-1)  (tetraspan (tetraspanin  tm4-c) C231R108  < 2e-50  4.20  C240R068  < 2e-50  4.60  C140R014  PRSS27  < 2e-50  5.20  protease, serine 27  C061R008  FGFBP1|LOC783341  < 2e-50  4.20  fibroblast growth factor  binding  1|fibroblast  protein growth  factor-binding protein 1 precursor C053R002  RHCG1  < 2e-50  3.70  ammonium transporter rh type c 1  C254R010 C033R159  DTX3L  < 2e-50  4.10  < 2e-50  6.40  deltex  3-like  (drosophila) C048R116  < 2e-50  4.10  328  Probe  Gene Symbol  C068R106  p-value  log2 FC  < 2e-50  6.50  Description  C237R060  BARX1  < 2e-50  4.10  barh-like homeobox 1  C041R138  RV1301|MT1340  < 2e-50  3.50  uncharacterized protein rv1301/mt1340|uncharacterized protein rv1301/mt1340  C097R132  < 2e-50  3.10  C093R094  < 2e-50  4.10  C019R109  < 2e-50  5.10  < 2e-50  3.60  C177R101  MYBPC1  myosin binding protein c, slow type  C082R039  SPINT1  < 2e-50  3.20  serine  peptidase  hibitor,  kunitz  intype  1 C157R039 C179R085  TNNI1  < 2e-50  5.00  < 2e-50  3.50  troponin i, skeletal, slow 1  C076R078  TSPAN8  < 2e-50  4.40  tetraspanin 8  C024R155  GIMAP7  < 2e-50  3.70  gtpase,  imap  family  member 7 C262R042  < 2e-50  3.60  < 2e-50  5.50  C126R068  < 2e-50  7.20  C220R045  < 2e-50  3.10  C226R095  HEBP2  heme binding protein 2  329  Probe C262R125  Gene Symbol  p-value  log2 FC  HSD17B2  < 2e-50  3.30  Description estradiol  17-beta-  dehydrogenase 2 C237R040  < 2e-50  5.10  C233R097  < 2e-50  4.30  C231R155  < 2e-50  3.70  C081R086  < 2e-50  6.90  C098R130  < 2e-50  4.00  < 2e-50  3.00  C068R007  GCM2  glial cells missing homolog (drosophila), related sequence 2  C230R051  < 2e-50  3.00  C031R027  < 2e-50  6.80  C099R058  < 2e-50  6.10  < 2e-50  5.70  C233R065  COL6A2  collagen, type vi, alpha 2  C048R024  KCNJ1  < 2e-50  5.10  atp-sensitive rectifier  inward potassium  channel 1 C065R124 C014R157  CEACAM1  < 2e-50  4.40  < 2e-50  4.70  carcinoembryonic antigen-related adhesion  molecule  precursor  330  cell 1  Probe  Gene Symbol  C249R098 C149R039  CAMSAP1B  p-value  log2 FC  < 2e-50  6.20  < 2e-50  4.40  Description  calmodulin-regulated spectrin-associated protein 1  C108R095  CP1  C211R137 C210R157  FLI1  < 2e-50  3.10  < 2e-50  6.40  < 2e-50  3.30  cysteine proteinase-1  friend leukemia virus integration 1  C095R051  MYBPC1  < 2e-50  3.60  myosin binding protein c, slow type  C108R111 C071R132  CLIC4  < 2e-50  4.90  < 2e-50  3.40  chloride  intracellular  channel 4 C012R054  FAM3C  < 2e-50  4.70  protein fam3c precursor  C002R029  FABP6  < 2e-50  3.50  fatty  acid  binding  protein 6, ileal (gastrotropin) C020R081  TNNT1  < 2e-50  3.40  troponin t1,  skeletal,  slow C122R152  < 2e-50  3.80  < 2e-50  5.60  C047R096  < 2e-50  3.50  C177R026  < 2e-50  5.80  C050R158  DLX4A  homeobox protein dlx4a  331  Probe  Gene Symbol  C182R071 C050R007  TAP2  p-value  log2 FC  < 2e-50  6.80  < 2e-50  3.20  Description  transporter  2,  binding  atp-  cassette,  sub-family b (mdr/tap) C168R108 C160R049  TNNT2  6.97e-50  5.80  2.35e-49  4.10  troponin t type 2 (cardiac)  C131R170  4.23e-49  3.70  C117R124  5.46e-49  4.50  C063R079  1.33e-48  3.50  1.16e-45  3.70  C217R035  ZGC:92849  ras-related  and  estrogen-regulated growth  inhibitor-like  protein C050R001  3.36e-43  3.80  C075R040  3.97e-43  3.80  C002R121  3.89e-42  3.70  1.16e-41  5.30  C134R154  DBI  diazepam binding inhibitor (gaba receptor modulator, coenzyme  acyla  protein) C019R156  1.86e-41  7.00  332  binding  Probe C146R092  Gene Symbol  p-value  STARD10  1.22e-39  log2 FC 3.50  Description start domain containing 10  C114R015  3.24e-38  4.10  C153R102  7.84e-38  3.10  C146R159  SHROOM3  4.85e-37  3.30  protein shroom3  C189R025  PAX1  7.06e-37  3.80  paired box gene 1  1.35e-36  3.00  4.17e-35  3.50  C122R116 C127R005  BANK1  b-cell scaffold protein with ankyrin repeats  C006R085  2.97e-33  3.50  C133R115  3.21e-33  3.90  C064R034  4.54e-33  3.10  C027R053  1.40e-32  4.40  1.26e-31  3.60  C120R154  RAB25  rab25,  member  ras  oncogene family C098R110  2.28e-31  4.70  C010R109  4.24e-31  4.00  3.66e-30  4.20  C172R149  RERGL  ras-related  and  estrogen-regulated growth  inhibitor-like  protein C001R024  6.03e-30  3.60  C257R032  6.14e-29  4.90  333  Probe C179R125  Gene Symbol  p-value  SNAI2  2.06e-28  log2 FC 4.50  Description snail  homolog  2  (drosophila) C222R131  TNNI2  3.46e-28  4.10  troponin i type 2 (skeletal, fast)  C219R065  8.31e-28  3.40  C104R025  1.68e-26  4.30  C234R046  9.48e-26  5.20  C113R012  1.16e-25  3.90  3.72e-25  4.40  C087R048  PTGIS  PRSS21  prostacyclin synthase  protease,  serine,  21  (testisin) C084R162  6.93e-24  3.50  C113R076  9.56e-24  3.50  3.29e-23  5.00  C099R061  GIMAP7  gtpase,  imap  family  member 7 C055R110  GBGT1  1.45e-22  4.60  globoside  alpha-1,3-n-  acetylgalactosaminyltransferase 1 C242R099  2.47e-20  4.90  C265R148  1.01e-19  3.20  C092R076  3.55e-18  4.80  3.50e-17  3.80  C086R094  NOXA1  nadph oxidase activator 1  C204R048  SLC4A1AP  4.24e-17  3.80  kanadaptin  334  Probe  Gene Symbol  p-value  RNF152  8.12e-17  3.00  C244R099  2.71e-16  4.40  C254R039  5.25e-16  3.10  C144R048  1.67e-15  6.20  C100R078  1.85e-15  3.10  3.10e-15  3.40  C013R081  C201R022  GNL1  log2 FC  Description ring finger protein 152  guanine  nucleotide-  binding  protein-like  1 C101R166  3.32e-15  3.70  C141R050  1.07e-14  4.00  C197R010  6.87e-14  3.40  C007R107  8.25e-14  3.20  2.57e-13  3.30  C095R167  ACP2  acid  phosphatase  2,  lysosomal C037R122  3.30e-13  3.50  C222R137  4.09e-13  5.90  5.94e-13  4.30  C061R006  SAMD9  sterile alpha motif domain containing 9  C145R146  3.72e-12  3.70  C054R169  5.00e-12  3.00  C082R063  9.14e-12  3.10  2.06e-11  3.00  C101R105  BANK1  b-cell scaffold protein with ankyrin repeats  335  Probe C204R114  Gene Symbol  p-value  GALNT6  2.47e-11  log2 FC 4.40  Description udp-n-acetyl-alpha-dgalactosamine:polypeptide nacetylgalactosaminyltransferase 6  C147R149  PADI2  2.56e-11  3.30  peptidyl arginine deiminase, type ii  C064R127  GMPPAA  4.41e-11  3.50  mannose-1-phosphate guanyltransferase alpha-a  C071R121 C068R165  ORMDL1  5.05e-11  3.30  7.25e-11  3.30  orm1-like 1 (s.  cere-  visiae) C090R099  4.03e-10  5.90  C174R150  1.25e-09  3.90  C054R043  2.36e-09  4.90  C022R068  4.04e-09  3.20  C233R070  4.10e-09  4.20  C007R132  6.17e-09  3.80  9.55e-09  4.50  C047R128  APCDD1L  protein apcdd1-like precursor  C209R121  1.31e-08  4.40  C038R126  2.17e-08  5.00  336  Probe C247R111  Gene Symbol  p-value  CYLD  3.01e-08  log2 FC 4.40  Description cylindromatosis (turban tumor syndrome)  C187R144  1.01e-07  5.00  C016R137  TG  1.25e-07  4.60  thyroglobulin  C244R127  TRIM29  5.92e-07  3.60  tripartite motif protein 29  C108R094  7.06e-07  4.70  C013R046  8.57e-07  4.60  C120R083  1.08e-06  4.70  1.25e-06  3.90  C157R135  CDX1  caudal type homeobox transcription factor 1  C242R114  3.85e-06  3.20  C201R069  5.64e-05  4.50  C120R005  6.68e-05  3.30  C087R031  0.000139  4.20  0.000234  3.60  C044R002  CLDN23  CCDC87  claudin-23  coiled-coil  domain-  containing  protein  87 C220R032  0.000463  3.80  C038R107  0.001065  3.40  0.001969  3.60  0.002109  4.10  C010R045 C167R111  PFDN2  prefoldin subunit 2  337  Probe C265R126  Gene Symbol  p-value  log2 FC  NKX2-3  0.002126  3.30  Description nk2 transcription factor homolog c (drosophila)  C010R042  IRF2  0.004193  3.40  interferon  regulatory  factor 2 C009R054  N4BP1  0.004621  3.10  nedd4 binding protein 1  C031R096  GPR183  0.005264  3.20  ebv-induced  g-protein  coupled receptor 2 C111R159  SCUBE2  0.005475  4.50  signal and  peptide, egf-like  containing  cub  domain-  protein  precursor  B.3  Liver-Specific Probes Probe  C008R134  Gene Symbol  p-value  log2 FC  SERPINF2  < 2e-50  8.10  Description serine (or cysteine) peptidase inhibitor, clade f, member 2  C013R102  FGB  < 2e-50  7.30  fibrinogen beta chain  338  2  Probe C014R084  Gene Symbol  p-value  log2 FC  PCBD1  < 2e-50  3.30  Description pterin  4  alpha  carbinolamine  de-  hydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1 C015R034  CLDN10  < 2e-50  6.20  dna segment, chr 14, erato doi 728, expressed  C016R093  C4B  < 2e-50  7.40  complement component 4b (childo blood group)  C018R088  < 2e-50  6.10  C018R138  < 2e-50  7.30  < 2e-50  4.80  C020R017  SULT2B1  sulfotransferase family, cytosolic, 2b, member 1  C021R132  SERPINC1  < 2e-50  7.70  serine (or cysteine) peptidase inhibitor, clade c (antithrombin), member 1  C022R104  < 2e-50  8.10  C024R043  < 2e-50  7.00  C024R090  < 2e-50  6.80  C025R056  < 2e-50  6.50  339  Probe C026R077  Gene Symbol  p-value  log2 FC  AKR1D1  < 2e-50  6.90  Description aldo-keto  reductase  family 1, member d1 (delta  4-3-ketosteroid-  5-beta-reductase) C026R130  CYP8B1  < 2e-50  4.70  cytochrome p450, family  8,  subfamily  b,  polypeptide 1 C027R055  FGB  < 2e-50  4.90  fibrinogen beta chain  C029R129  PNP  < 2e-50  7.60  purine-nucleoside phosphorylase  C031R049  RBP2  < 2e-50  7.20  retinol binding protein 2, cellular  C032R077  ABHD12  < 2e-50  3.50  riken cdna 6330583m11 gene  C037R088  GSTZ1  < 2e-50  4.40  glutathione transferase zeta 1 (maleylacetoacetate isomerase)  C037R111  < 2e-50  8.00  C038R018  < 2e-50  6.50  C038R084  CFB  < 2e-50  7.50  complement factor b  C038R130  CYP4B1  < 2e-50  4.80  cytochrome p450, family  4,  subfamily  polypeptide 1  340  b,  Probe  Gene Symbol  C038R164 C040R046  RDH12  p-value  log2 FC  < 2e-50  4.70  < 2e-50  6.90  Description  retinol  dehydrogenase  12 (all-trans and 9-cis) C043R064  UGT2A3  < 2e-50  5.40  udp glucuronosyltransferase 2 family, polypeptide a3  C044R024  < 2e-50  3.60  C048R164  < 2e-50  7.30  C052R143  < 2e-50  6.50  C055R099  < 2e-50  4.90  C059R031  < 2e-50  7.20  < 2e-50  8.00  C059R155  SORD  C8B  sorbitol dehydrogenase  complement component c8 beta chain precursor  C060R167  HC  < 2e-50  8.20  hemolytic complement  C062R107  PLG  < 2e-50  8.90  plasminogen  C062R160  APOB  < 2e-50  7.30  apolipoprotein b (including ag(x) antigen)  C066R106  ACMSD|ACMSD  < 2e-50  8.00  aminocarboxymuconate semialdehyde decarboxylase|aminocarboxymuconate semialdehyde  decar-  boxylase C068R085  < 2e-50  7.30  341  Probe  p-value  log2 FC  C069R066  < 2e-50  6.90  C069R139  < 2e-50  5.60  C070R031  < 2e-50  7.40  < 2e-50  8.00  C071R099  Gene Symbol  CFP  Description  complement  factor  properdin C072R021  < 2e-50  6.70  C073R099  < 2e-50  6.70  C075R028  < 2e-50  4.10  < 2e-50  8.00  C075R050  < 2e-50  6.60  C079R044  < 2e-50  6.20  C080R029  < 2e-50  8.50  C080R158  < 2e-50  8.00  C081R121  < 2e-50  5.10  < 2e-50  5.20  C075R045  C082R128  APOH  F10  CIDEB  apolipoprotein h  coagulation factor x  cell death-inducing dna fragmentation alpha  factor,  subunit-like  effector b C082R129  FTCD  < 2e-50  7.40  formiminotransferase cyclodeaminase  C083R094 C087R142  C1R  < 2e-50  7.50  < 2e-50  7.70  complement c1r subcomponent precursor  342  Probe  Gene Symbol  p-value  log2 FC  CFB  < 2e-50  7.50  C089R094  < 2e-50  7.20  C093R034  < 2e-50  6.90  < 2e-50  5.70  < 2e-50  8.10  C089R027  C093R047  BHMT  C094R074  Description complement factor b  zgc:123027  C094R156  KNG1  < 2e-50  8.50  kininogen-1 precursor  C095R050  C1QTNF3  < 2e-50  5.70  c1q and tumor necrosis factor related protein 3  C096R115  KIN  < 2e-50  8.40  antigenic  determinant  of rec-a protein C098R030  SERPINF2  < 2e-50  8.20  serine (or cysteine) peptidase inhibitor, clade f, member 2  C100R030  < 2e-50  7.00  C100R117  < 2e-50  7.00  C105R100  MIOX  < 2e-50  8.10  inositol oxygenase  C105R121  ABHD12  < 2e-50  5.30  riken cdna 6330583m11 gene  C106R028 C107R143  HSD3B7  < 2e-50  4.40  < 2e-50  3.90  3  beta-hydroxysteroid  dehydrogenase type 7  343  Probe C108R007  Gene Symbol  p-value  log2 FC  PCBD1  < 2e-50  3.30  Description pterin  4  alpha  carbinolamine  de-  hydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1 C109R020  < 2e-50  7.90  C110R067  < 2e-50  7.00  < 2e-50  6.00  C110R103  ST3GAL5  st3  beta-galactoside  alpha-2,3sialyltransferase 5 C111R028 C111R089  HSPG2  < 2e-50  8.00  < 2e-50  6.70  heparan sulfate proteoglycan 2 (perlecan)  C112R056  < 2e-50  8.20  < 2e-50  6.90  C113R120  < 2e-50  4.70  C115R131  < 2e-50  7.20  < 2e-50  7.10  C112R069  C117R121  APOH  TTPA  apolipoprotein h  tocopherol  (alpha)  transfer protein (ataxia (friedreich-like)  with  vitamin e deficiency)  344  Probe C119R098  Gene Symbol  p-value  log2 FC  C1R  < 2e-50  6.30  Description complement c1r subcomponent precursor  C120R011  SERPING1  < 2e-50  6.40  serpin  peptidase  hibitor,  in-  clade g (c1  inhibitor), member 1, (angioedema,  heredi-  tary) C121R078  C8G  < 2e-50  7.20  complement component 8, gamma polypeptide  C122R109  < 2e-50  7.80  C122R113  < 2e-50  5.40  C124R014  < 2e-50  8.60  < 2e-50  6.40  C125R057  F10  SLCO1B2  coagulation factor x  solute carrier family 21 (organic anion transporter), member 6  C126R143  C1QTNF3  < 2e-50  6.50  c1q and tumor necrosis factor related protein 3  C126R166  HRSP12  < 2e-50  8.10  similar to ribonuclease uk114 (14.5 kda translational inhibitor protein) (p14.5) (uk114 antigen homolog)  345  Probe C129R085  Gene Symbol  p-value  log2 FC  LECT2  < 2e-50  6.30  Description leukocyte  cell-derived  chemotaxin 2 C131R029  < 2e-50  7.50  C131R091  < 2e-50  3.90  C131R107  < 2e-50  6.80  C133R037  < 2e-50  6.50  < 2e-50  7.40  C134R042  C4BPA  complement component 4 binding protein, alpha  C134R121  LECT2  < 2e-50  6.20  leukocyte  cell-derived  chemotaxin 2 C137R063  < 2e-50  8.40  C139R038  < 2e-50  8.10  < 2e-50  3.20  C139R071  PCBD1  pterin  4  alpha  carbinolamine  de-  hydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1 C142R082  HSPG2  < 2e-50  6.90  heparan sulfate proteoglycan 2 (perlecan)  C145R012  SERPINF2  < 2e-50  7.40  serine (or cysteine) peptidase inhibitor, clade f, member 2  346  Probe  Gene Symbol  p-value  log2 FC  KNG1  < 2e-50  8.60  C151R119  < 2e-50  7.60  C153R004  < 2e-50  7.20  < 2e-50  8.80  C149R147  C153R114  CLEC4E  Description kininogen-1 precursor  c-type  lectin  domain  family 4, member e C154R154 C155R089  RAB20  < 2e-50  7.40  < 2e-50  3.10  rab20,  member  ras  oncogene family C157R017  PLA2G12B  < 2e-50  7.20  phospholipase a2, group xiib  C160R103  < 2e-50  6.70  C162R011  < 2e-50  7.10  < 2e-50  7.70  C163R019  RBP2  retinol binding protein 2, cellular  C164R071 C164R142  LECT2  < 2e-50  7.90  < 2e-50  6.20  leukocyte  cell-derived  chemotaxin 2 C165R105  NME4  < 2e-50  7.70  non-metastatic cells 4, protein expressed in  C166R151  < 2e-50  6.10  C168R003  < 2e-50  5.40  < 2e-50  6.60  < 2e-50  6.30  C169R076 C171R075  F10  coagulation factor x  347  Probe C171R152  Gene Symbol  p-value  log2 FC  SLC27A2  < 2e-50  6.80  Description solute carrier family 27 (fatty acid transporter), member 2  C173R046  SLC37A4  < 2e-50  4.60  solute carrier family 37 (glycerol-6-phosphate transporter), member 4  C175R025  < 2e-50  7.40  C176R044  < 2e-50  8.10  C179R097  CRYM  < 2e-50  4.60  crystallin, mu  C181R147  TMEM220  < 2e-50  3.70  transmembrane protein loc388335  C183R084  C1QL2  < 2e-50  6.90  complement component 1, q subcomponent-like 2  C183R124  < 2e-50  6.90  C183R131  < 2e-50  5.90  C185R036  < 2e-50  7.00  C185R087  PLA1A  < 2e-50  4.80  zgc:77160  C186R014  CLDN10  < 2e-50  7.20  dna segment, chr 14, erato doi 728, expressed  C186R066  CPN1  < 2e-50  5.40  carboxypeptidase polypeptide 1, 50kd  348  n,  Probe C188R157  Gene Symbol  p-value  log2 FC  agxt  < 2e-50  6.30  Description alanine-glyoxylate aminotransferase  C189R140  GSTT1  < 2e-50  5.60  glutathione  s-  transferase  theta  1 C191R125  GSTT1  < 2e-50  4.60  glutathione  s-  transferase  theta  1 C196R087  < 2e-50  8.20  C197R024  < 2e-50  8.10  < 2e-50  7.00  C197R071  ITIH2  inter-alpha  (globulin)  inhibitor h2 C197R106  CFB  < 2e-50  8.80  complement factor b  C199R118  QPRT  < 2e-50  4.30  quinolinate  phos-  phoribosyltransferase (nicotinate-nucleotide pyrophosphorylase (carboxylating)) C201R010  HPX  < 2e-50  7.30  C203R114  < 2e-50  6.70  C205R143  < 2e-50  7.70  C206R022  < 2e-50  6.40  C206R149  < 2e-50  7.30  hemopexin  349  Probe  Gene Symbol  C209R124 C210R018  SERPINA10  p-value  log2 FC  < 2e-50  8.60  < 2e-50  8.00  Description  serine (or cysteine) peptidase inhibitor, clade a (alpha-1 antiproteinase, antitrypsin),  member  10 C211R104  DCXR  < 2e-50  3.50  dicarbonyl l-xylulose reductase  C211R152 C211R161  TIMP2  < 2e-50  6.20  < 2e-50  6.60  tissue inhibitor of mettaloproteinase 2  C214R122  NCAPG  < 2e-50  4.20  condensin complex subunit 3  C215R007  PGLYRP2  < 2e-50  7.50  peptidoglycan recognition protein 2  C216R056  TIMP2  < 2e-50  5.70  tissue inhibitor of mettaloproteinase 2  C216R074  LOC304000  < 2e-50  4.60  immunoglobulin superfamily member 5 precursor  C217R032  IGFALS  < 2e-50  7.20  insulin-like  growth  factor binding protein, acid labile subunit  350  Probe  Gene Symbol  C219R097 C221R073  FTCD  p-value  log2 FC  < 2e-50  8.70  < 2e-50  7.20  Description  formiminotransferase cyclodeaminase  C221R134 C223R118  TM4SF4  < 2e-50  6.60  < 2e-50  6.50  transmembrane 4 superfamily member 4  C223R134  HABP2  < 2e-50  8.50  hyaluronan-binding protein 2 precursor  C223R167  < 2e-50  6.10  C225R110  < 2e-50  7.00  < 2e-50  6.20  C230R159  < 2e-50  6.70  C231R017  < 2e-50  6.50  < 2e-50  3.30  C228R017  C232R143  HPX  PCBD1  hemopexin  pterin  4  alpha  carbinolamine  de-  hydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1 C235R007 C235R032  FABP10A  < 2e-50  6.70  < 2e-50  6.10  fatty acid-binding protein, liver  351  Probe C236R145  Gene Symbol  p-value  log2 FC  SERPIND1  < 2e-50  8.20  Description serine (or cysteine) proteinase inhibitor, clade d, member 1  C237R038  < 2e-50  5.90  C239R074  < 2e-50  7.40  C241R039  < 2e-50  5.60  C241R088  < 2e-50  7.10  < 2e-50  3.90  C242R049  VTN  IGFBP2A  vitronectin  insulin-like  growth  factor-binding protein 2 precursor C243R046 C243R060  CRYM  C243R063 C245R082  C3  < 2e-50  4.10  < 2e-50  4.70  < 2e-50  6.00  < 2e-50  8.20  crystallin, mu  complement component 3  C246R031  MARVELD2  < 2e-50  3.90  marvel domain containing 2  C247R116  < 2e-50  8.20  C249R134  DAO  < 2e-50  3.40  d-amino-acid oxidase  C251R116  CRYM  < 2e-50  4.50  crystallin, mu  C253R121  CFH  < 2e-50  7.70  complement factor h  C256R107  CFP  < 2e-50  8.30  complement  factor  properdin  352  Probe  Gene Symbol  C257R139 C258R148  GCSH  p-value  log2 FC  < 2e-50  5.80  < 2e-50  4.50  Description  glycine cleavage system protein h (aminomethyl carrier)  C259R015  TM4SF5  < 2e-50  7.60  transmembrane 4 l six family member 5  C260R126  HPN  < 2e-50  5.30  serine protease hepsin  C260R145  PCBD1  < 2e-50  3.20  pterin  4  alpha  carbinolamine  de-  hydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1 C250R042  < 2e-50  4.20  C026R121  < 2e-50  7.10  C183R040  < 2e-50  3.50  < 2e-50  7.90  C073R015  KYNU  PRHOXNB  kynureninase  2-oxo-4-hydroxy4-carboxy-5ureidoimidazoline decarboxylase  C009R126  HSPG2  < 2e-50  6.20  heparan sulfate proteoglycan 2 (perlecan)  C220R118  < 2e-50  8.60  353  Probe  Gene Symbol  C042R027 C235R058  FTCD  p-value  log2 FC  < 2e-50  4.80  < 2e-50  7.10  Description  formiminotransferase cyclodeaminase  C195R013  SULT2B1  < 2e-50  4.80  sulfotransferase family, cytosolic, 2b, member 1  C041R046  SLC5A1  < 2e-50  4.60  solute  carrier  family  5 (sodium/glucose cotransporter),  member  1 C054R124 C012R044  CLEC4E  < 2e-50  8.10  < 2e-50  7.30  c-type  lectin  domain  family 4, member e C066R007  TIMP2  < 2e-50  5.80  tissue inhibitor of mettaloproteinase 2  C040R168 C206R138  APOB  < 2e-50  8.20  < 2e-50  6.90  apolipoprotein b (including ag(x) antigen)  C145R001  CRP  < 2e-50  6.30  c-reactive protein  C056R016  GSTT1  < 2e-50  6.20  glutathione  s-  transferase  theta  1 C102R113  KYNU  < 2e-50  4.30  kynureninase  354  Probe C042R141  Gene Symbol  p-value  log2 FC  FAM176B  < 2e-50  3.00  Description transmembrane protein c1orf78 homolog  C245R081  SERPINC1  < 2e-50  7.80  serine (or cysteine) peptidase inhibitor, clade c (antithrombin), member 1  C109R159  GSTT1  < 2e-50  6.10  glutathione  s-  transferase  theta  1 C175R160 C006R056  MSRB2  < 2e-50  7.60  < 2e-50  4.60  methionine-r-sulfoxide reductase b2, mitochondrial precursor  C052R108 C216R105  GSTT1  < 2e-50  4.70  < 2e-50  6.10  glutathione  s-  transferase  theta  1 C262R091  ZGC:153346  < 2e-50  4.10  glycerate kinase  C210R107  HPX  < 2e-50  8.00  hemopexin  C186R150  < 2e-50  6.40  C043R018  < 2e-50  7.40  355  Probe C064R071  Gene Symbol  p-value  log2 FC  TTPA  < 2e-50  6.10  Description tocopherol  (alpha)  transfer protein (ataxia (friedreich-like)  with  vitamin e deficiency) C017R166  SDR16C5  < 2e-50  3.50  epidermal retinal dehydrogenase 2  C251R122  FAH  < 2e-50  5.30  fumarylacetoacetate hydrolase (fumarylacetoacetase)  C162R069  GSTT1  < 2e-50  6.20  glutathione  s-  transferase  theta  1 C176R119  < 2e-50  5.00  C101R063  KYNU  < 2e-50  4.40  kynureninase  C038R042  HRSP12  < 2e-50  8.50  similar to ribonuclease uk114 (14.5 kda translational inhibitor protein) (p14.5) (uk114 antigen homolog)  C012R074  PGLYRP2  < 2e-50  7.00  peptidoglycan recognition protein 2  356  Probe C063R132  Gene Symbol  p-value  log2 FC  PKM2  < 2e-50  5.90  Description cytosolic  thyroid  hormone binding protein/pyruvate  kinase  type m2 C155R103  MASP1  < 2e-50  4.60  complement-activating component  of  ra-  reactive factor precursor C159R128 C046R028  RBP1  < 2e-50  6.30  < 2e-50  4.20  retinol binding protein 1, cellular  C158R007  ABCG8  < 2e-50  6.00  atp-binding  cassette,  sub-family g (white), member 8 C211R045  PXMP2  < 2e-50  3.00  peroxisomal membrane protein 2  C089R070  FGB  < 2e-50  4.80  fibrinogen beta chain  C009R089  DECR2  < 2e-50  3.40  zgc:85626  < 2e-50  6.80  C085R044 C254R048  ANGPTL3  < 2e-50  7.30  angiopoietin-like 3  C135R162  MST1  < 2e-50  7.10  hepatocyte  growth  factor-like  protein  precursor  357  Probe C207R051  Gene Symbol  p-value  log2 FC  PXMP2  < 2e-50  3.70  Description peroxisomal membrane protein 2  C144R122  ATIC  < 2e-50  3.40  5-aminoimidazole-4carboxamide cleotide  ribonu-  formyltrans-  ferase/imp cyclohydrolase C237R077  F5  < 2e-50  6.10  coagulation  factor  (proaccelerin,  v  labile  factor) C071R101  PCK2  < 2e-50  5.00  phosphoenolpyruvate carboxykinase 2 (mitochondrial)  C160R105  PKM2  < 2e-50  5.80  cytosolic  thyroid  hormone binding protein/pyruvate  kinase  type m2 C094R001  Glud1  < 2e-50  3.50  glutamate  dehydroge-  nase 1 C210R148  < 2e-50  4.60  C240R048  < 2e-50  4.80  < 2e-50  3.50  C181R076  DAO  d-amino-acid oxidase  358  Probe C195R112  Gene Symbol  p-value  log2 FC  Description  LRG1  < 2e-50  5.50  leucine-rich  alpha-2-  glycoprotein 1 C045R145 C233R028  PCBD1  < 2e-50  8.10  < 2e-50  3.20  pterin  4  alpha  carbinolamine  de-  hydratase/dimerization cofactor of hepatocyte nuclear factor 1 alpha (tcf1) 1 C222R114  QSOX1  < 2e-50  3.80  quiescin q6  C246R022  ITI-HC3  < 2e-50  7.70  inter-alpha-trypsin  in-  hibitor heavy chain h3 precursor C035R112  HAL  C261R057 C047R153  AGXT2L1  < 2e-50  6.60  < 2e-50  6.10  < 2e-50  5.40  histidine ammonia lyase  alanine–glyoxylate aminotransferase 2-like 1  C092R080  HNMT  < 2e-50  5.30  histamine  n-  methyltransferase C068R031 C119R076  1700112E06RIK  < 2e-50  3.70  < 2e-50  6.60  riken cdna 1700112e06 gene  359  Probe  Gene Symbol  C111R045 C130R056  APOF  C216R093 C118R063  FAH  p-value  log2 FC  < 2e-50  8.20  < 2e-50  3.20  < 2e-50  6.00  < 2e-50  5.10  Description  apolipoprotein f  fumarylacetoacetate hydrolase (fumarylacetoacetase)  C172R094  MYOZ2  < 2e-50  3.70  C003R067  < 2e-50  6.50  C206R064  < 2e-50  4.40  C156R147  < 2e-50  8.50  zgc:77803  C164R025  F10  < 2e-50  7.80  coagulation factor x  C248R055  SERPINA1  < 2e-50  6.40  serpin  peptidase  in-  hibitor, clade a (alpha-1 antiproteinase,  antit-  rypsin), member 1 C100R168  RBP1  < 2e-50  3.10  retinol binding protein 1, cellular  C035R122 C066R154  CYP46A1  < 2e-50  6.20  < 2e-50  4.20  cytochrome p450, family 46,  subfamily a,  polypeptide 1 C204R168  SFXN2  < 2e-50  4.10  sideroflexin 2  360  Probe C056R132  Gene Symbol  p-value  log2 FC  BAAT  < 2e-50  4.00  Description bile a:  acid-coenzyme amino  acid  n-  acyltransferase C151R089  CLDN3  C130R069  < 2e-50  3.30  < 2e-50  3.50  claudin 3  C032R117  SFXN2  < 2e-50  4.00  sideroflexin 2  C158R123  ABCB11  < 2e-50  6.90  atp-binding  cassette,  sub-family b (mdr/tap), member 11 C088R039  HAO1  < 2e-50  4.90  hydroxyacid  oxidase  (glycolate oxidase) 1 C028R118  SLC16A1  < 2e-50  4.10  solute carrier family 16 member 1  C234R132 C037R078  FTCD  < 2e-50  7.00  < 2e-50  6.20  formiminotransferase cyclodeaminase  C146R034  MIOX  < 2e-50  7.90  inositol oxygenase  C083R134  IWS1  < 2e-50  4.40  riken cdna 1700069o15 gene  C113R015  DMBT1  < 2e-50  4.00  deleted  in  malignant  brain tumors 1 C203R094 C103R093  AMY2  < 2e-50  8.10  < 2e-50  7.60  amylase 2, pancreatic  361  Probe  Gene Symbol  C021R028 C137R137  F5  p-value  log2 FC  < 2e-50  5.60  < 2e-50  6.00  Description  coagulation  factor  (proaccelerin,  v  labile  factor) C167R106 C034R155  F5  < 2e-50  3.50  < 2e-50  6.20  coagulation  factor  (proaccelerin,  v  labile  factor) C050R003  CFP  < 2e-50  7.40  complement  factor  properdin C110R017 C099R106  CYP2D3  < 2e-50  3.60  < 2e-50  4.90  cytochrome p450, family  2,  subfamily  d,  polypeptide 13 C004R114  F9  < 2e-50  7.50  coagulation  factor  ix  (plasma thromboplastic component,  christmas  disease, hemophilia b) C266R115  < 2e-50  7.40  C021R104  < 2e-50  6.80  < 2e-50  3.50  C226R139  Glud1  glutamate  dehydroge-  nase 1  362  Probe C123R155  Gene Symbol  p-value  log2 FC  HHIPL1  < 2e-50  4.60  Description hhip-like protein 1 precursor  C081R058  F12  < 2e-50  7.50  coagulation factor xii precursor  C046R085  CYP46A1  < 2e-50  4.30  cytochrome p450, family 46,  subfamily a,  polypeptide 1 C049R143  < 2e-50  6.40  C108R155  < 2e-50  7.30  < 2e-50  3.40  C152R009  CYP4B1  cytochrome p450, family  4,  subfamily  b,  polypeptide 1 C078R146  < 2e-50  3.60  C180R125  < 2e-50  7.70  C137R164  < 2e-50  7.80  C261R047  < 2e-50  5.40  C226R007  < 2e-50  5.70  < 2e-50  3.80  C112R154  LAMP3  lysosomal-associated membrane protein 3  C075R023 C019R112  CYP46A1  < 2e-50  6.10  < 2e-50  4.40  cytochrome p450, family 46,  subfamily a,  polypeptide 1  363  Probe C065R017  Gene Symbol  p-value  log2 FC  UGT2A2  < 2e-50  3.60  Description udpglucuronosyltransferase 2a2 precursor  C215R138  < 2e-50  5.90  C087R135  < 2e-50  4.50  C133R140  < 2e-50  5.20  < 2e-50  3.20  C036R168  BHMT  CYP4B1  zgc:123027  cytochrome p450, family  4,  subfamily  b,  polypeptide 1 C165R049  ZGC:153346  C221R036 C083R095  HAO1  < 2e-50  4.10  < 2e-50  3.10  < 2e-50  6.50  glycerate kinase  hydroxyacid  oxidase  (glycolate oxidase) 1 C171R087 C037R093  ACOX3  < 2e-50  7.50  < 2e-50  3.70  acyl-coenzyme a oxidase 3, pristanoyl  C015R021  CYB5A  < 2e-50  3.20  cytochrome b5  C230R123  GSTT1  < 2e-50  5.70  glutathione  s-  transferase  theta  1 C056R064  APCS  < 2e-50  6.60  serum  amyloid  component C159R143  < 2e-50  6.30  364  p-  Probe  Gene Symbol  p-value  log2 FC  Description  C127R024  NDRG1  < 2e-50  4.10  protein ndrg1  C063R009  C8A  < 2e-50  7.60  complement component c8 alpha chain precursor  C232R090  < 2e-50  3.90  C128R047  ANGPTL3  < 2e-50  7.10  angiopoietin-like 3  C177R072  TMEM30A  < 2e-50  3.60  cell cycle control protein 50a  C262R082  CALU  < 2e-50  4.20  calumenin  C193R091  LRRC15  < 2e-50  4.30  leucine-rich  repeat-  containing protein 15 precursor C024R165  IYD  < 2e-50  3.30  chromosome  6  open  reading frame 71 C020R143  NCEH1  < 2e-50  3.60  arylacetamide deacetylase-like 1  C206R066  CYP46A1  < 2e-50  4.20  cytochrome p450, family 46,  subfamily a,  polypeptide 1 C191R164 C146R063  RNF19A  < 2e-50  3.20  < 2e-50  5.10  e3 ubiquitin-protein ligase rnf19a  C136R068  SCARB2  < 2e-50  5.60  scavenger receptor class b, member 2  365  Probe  Gene Symbol  C214R158  p-value  log2 FC  < 2e-50  4.00  Description  C140R146  ETNK1  < 2e-50  6.50  ethanolamine kinase 1  C132R139  TAT  < 2e-50  7.00  tyrosine  aminotrans-  ferase C142R021  GRHPR  < 2e-50  3.90  glyoxylate  reduc-  tase/hydroxypyruvate reductase C037R051  < 2e-50  6.70  C224R024  < 2e-50  7.20  < 2e-50  3.70  C165R028  UGT2A2  udpglucuronosyltransferase 2a2 precursor  C048R121  SERPINF2  < 2e-50  7.10  serine (or cysteine) peptidase inhibitor, clade f, member 2  C090R166  CYP2J2  < 2e-50  7.10  cytochrome  p450,  family 2, subfamily j, polypeptide 2 C210R084  AHCY-B  < 2e-50  3.10  adenosylhomocysteinase b  C212R146 C057R119  HACL1  < 2e-50  4.60  < 2e-50  3.50  phytanoyl-coa  2-  hydroxylase 2  366  Probe  Gene Symbol  p-value  log2 FC  C085R057  < 2e-50  3.70  C180R154  < 2e-50  7.40  Description  C040R075  FETUB  < 2e-50  5.40  fetuin b  C230R067  MAN1C1  < 2e-50  3.60  mannosyloligosaccharide  1,2-  alpha-mannosidase ic C107R110  UGT2A2  < 2e-50  3.30  udpglucuronosyltransferase 2a2 precursor  C024R136  Slc47a2  < 2e-50  3.20  hypothetical  protein  flj31196 C224R097  LAMP3  < 2e-50  3.60  lysosomal-associated membrane protein 3  C020R079  GLDC  < 2e-50  3.10  dna segment, chr 19, wayne state university 57, expressed  C189R170  LAMP3  < 2e-50  3.50  lysosomal-associated membrane protein 3  C210R038  LACZ  < 2e-50  7.10  beta-galactosidase  C251R018  Glud1  < 2e-50  3.40  glutamate  dehydroge-  nase 1  367  Probe C098R112  Gene Symbol  p-value  log2 FC  PPP1R9A  < 2e-50  4.70  Description protein phosphatase 1, regulatory  (inhibitor)  subunit 9a C193R016  < 2e-50  3.40  C251R096  < 2e-50  5.00  < 2e-50  5.00  C063R021  CYP4V2|CYP4V2  cytochrome family ily  p450,  4,  v,  subfampolypeptide  2|cytochrome  p450,  family 4, subfamily v, polypeptide 2 C056R096 C081R132  A1CF  < 2e-50  3.00  < 2e-50  5.40  apobec1 complementation factor  C068R023  < 2e-50  3.60  < 2e-50  7.10  C067R143  < 2e-50  4.00  C138R066  < 2e-50  4.30  < 2e-50  4.10  C137R067  C073R153  CYP2U1  RRBP1  cytochrome p450 2u1  ribosome binding protein 1 homolog 180kda (dog)  C167R122  < 2e-50  3.20  C112R035  < 2e-50  6.90  368  Probe  Gene Symbol  p-value  log2 FC  Description  C223R099  CHIA  < 2e-50  5.70  chitinase, acidic  C019R066  BATF3  < 2e-50  5.00  basic  leucine  zipper  transcriptional  factor  atf-like 3 C251R097  RGD1305689  < 2e-50  3.90  similar to dna segment, chr 14, erato doi 449, expressed  C182R148  URAH  < 2e-50  6.60  5-hydroxyisourate hydrolase  C183R121  CFP  < 2e-50  4.90  complement  factor  properdin C055R119  PCK1  < 2e-50  3.60  phosphoenolpyruvate carboxykinase 1,  cy-  tosolic C031R056  TDO2B  < 2e-50  8.00  tryptophan  2,3-  dioxygenase C089R116 C196R143  FBP1  < 2e-50  3.00  < 2e-50  3.70  fructose-1,6bisphosphatase 1  C134R103  < 2e-50  5.10  C117R137  < 2e-50  5.60  C019R157  < 2e-50  5.40  369  Probe C169R077  Gene Symbol  p-value  log2 FC  Glud1  < 2e-50  3.80  Description glutamate  dehydroge-  nase 1 C256R156  SERPIND1  < 2e-50  7.60  serine (or cysteine) proteinase inhibitor, clade d, member 1  C149R165 C031R073  HGD  < 2e-50  3.00  < 2e-50  5.20  homogentisate  1,  2-  dioxygenase C055R046 C081R022  CHIA  C169R162 C244R069  SUCLG2  < 2e-50  4.10  < 2e-50  5.60  < 2e-50  7.60  < 2e-50  3.30  chitinase, acidic  succinate-coa  ligase,  gdp-forming,  beta  subunit C121R085  ALDOB  < 2e-50  5.60  aldolase  b,  fructose-  bisphosphate C195R037  FBP1  < 2e-50  3.60  fructose-1,6bisphosphatase 1  C074R104  < 2e-50  3.60  C186R078  < 2e-50  6.20  < 2e-50  6.30  C052R030  UGT2A1  udp glucuronosyltransferase 2 family, polypeptide a1  370  Probe C144R062  Gene Symbol  p-value  log2 FC  ME1  < 2e-50  4.00  Description malic  enzyme  1,  nadp(+)-dependent, cytosolic C028R053  ERCC5  < 2e-50  3.20  excision repair crosscomplementing rodent repair deficiency, complementation group 5  C179R029 C145R081  CPB2  < 2e-50  8.10  < 2e-50  7.70  carboxypeptidase  b2  (plasma) C076R051  PRPS2  < 2e-50  3.30  ribose-phosphate  py-  rophosphokinase 2 C259R078  CHIA  < 2e-50  5.50  C012R105  < 2e-50  8.20  C046R110  < 2e-50  4.00  chitinase, acidic  C070R128  FGB  < 2e-50  8.00  fibrinogen beta chain  C079R086  GCSH  < 2e-50  4.20  glycine cleavage system protein h (aminomethyl carrier)  C266R135 C244R159  HAO2  < 2e-50  4.40  < 2e-50  6.00  hydroxyacid oxidase 2  371  Probe  Gene Symbol  p-value  log2 FC  C103R140  DGAT2L1-A  < 2e-50  3.90  Description diacylglycerol  o-  acyltransferase 2 like 1 C164R018  agxt  < 2e-50  7.90  alanine-glyoxylate aminotransferase  C119R090  PPP1R3D  < 2e-50  5.10  protein phosphatase 1, regulatory subunit 3d  C254R062  ITI-HC3  < 2e-50  7.50  inter-alpha-trypsin  in-  hibitor heavy chain h3 precursor C075R116 C073R070  DNTTIP2  < 2e-50  5.90  < 2e-50  3.10  deoxynucleotidyltransferase terminal-interacting protein 2  C126R013  UGT2A2  < 2e-50  4.20  udpglucuronosyltransferase 2a2 precursor  C076R050  IGFBP2A  < 2e-50  3.90  insulin-like  growth  factor-binding protein 2 precursor C112R032  TLE1  < 2e-50  4.10  transducin-like  en-  hancer protein 1  372  Probe C240R115  Gene Symbol  p-value  log2 FC  QPCT  < 2e-50  4.00  Description glutaminyl-peptide cyclotransferase  (glu-  taminyl cyclase) C111R056 C256R151  HGD  < 2e-50  3.70  < 2e-50  5.10  homogentisate  1,  2-  dioxygenase C030R094  < 2e-50  3.70  C094R096  < 2e-50  3.20  C020R071  CYP39A1  < 2e-50  3.70  cytochrome p450 39a1  C203R085  SLC22A18  < 2e-50  3.40  solute carrier family 22 member 18  C153R066  NR1H4  < 2e-50  4.70  nuclear receptor subfamily 1, group h, member 4  C146R141  KCNC1  < 2e-50  6.00  potassium voltage gated channel,  shaw-related  subfamily, member 1 C001R030  TIMP2  < 2e-50  5.60  tissue inhibitor of mettaloproteinase 2  C101R094  MSI2  < 2e-50  5.30  musashi  homolog  (drosophila) C133R065 C180R148  ADK  < 2e-50  4.30  < 2e-50  4.40  adenosine kinase  373  2  Probe C113R026  Gene Symbol  p-value  log2 FC  CFHR1  < 2e-50  7.70  Description complement factor hrelated protein 1 precursor  C132R155 C017R006  LAMP3  < 2e-50  7.00  < 2e-50  3.30  lysosomal-associated membrane protein 3  C124R025  ACT2  < 2e-50  6.90  actin,  alpha sarcom-  eric/cardiac C073R091  DNAJC22  < 2e-50  5.10  dnaj homolog subfamily b member 15  C191R156  < 2e-50  6.80  C024R164  < 2e-50  8.00  C266R141  < 2e-50  3.80  < 2e-50  5.00  < 2e-50  5.20  < 2e-50  3.50  C013R163  CFB  F10  C110R167 C222R047  IDO2  complement factor b  coagulation factor x  indoleamine  2,3-  dioxygenase-like protein 1 C062R018  ACOT1  < 2e-50  4.10  acyl-coenzyme  a  thioesterase 1 C073R079 C266R134  CYP2D14  < 2e-50  5.00  < 2e-50  5.40  cytochrome p450 2d14  374  Probe C185R005  Gene Symbol  p-value  log2 FC  ACT2  < 2e-50  6.80  Description actin,  alpha sarcom-  eric/cardiac C111R114  SPCC61.03  < 2e-50  3.60  spcc61.03 protein  C170R047  PIPOX  < 2e-50  3.80  pipecolic acid oxidase  C124R022  ACT2  < 2e-50  6.30  actin,  alpha sarcom-  eric/cardiac C033R094  SLC27A2  < 2e-50  4.30  solute carrier family 27 (fatty acid transporter), member 2  C066R069  CYB5R2  < 2e-50  5.80  nadh-cytochrome b5 reductase 2  C053R153 C030R168  ABCG5  < 2e-50  6.80  < 2e-50  5.90  atp-binding  cassette  sub-family g member 5 C222R099  < 2e-50  6.30  C153R019  COX18  < 2e-50  5.40  synaptotagmin-like 1  C103R153  PSME4  < 2e-50  5.00  proteasome  activator  complex subunit 4 C231R074  F9  < 2e-50  7.00  coagulation  factor  ix  (plasma thromboplastic component,  christmas  disease, hemophilia b) C175R118  < 2e-50  3.10  375  Probe C203R073  Gene Symbol  p-value  log2 FC  PYGM  < 2e-50  3.20  Description phosphorylase, gen;  glyco-  muscle (mcardle  syndrome,  glycogen  storage disease type v) C133R006  UGT2A1  < 2e-50  4.60  udp glucuronosyltransferase 2 family, polypeptide a1  C098R029  < 2e-50  6.80  C193R155  < 2e-50  3.20  C258R029  ADK  < 2e-50  4.30  adenosine kinase  C060R138  CRELD2  < 2e-50  3.50  cysteine-rich with egflike domains 2  C044R116  < 2e-50  3.70  C196R076  < 2e-50  7.10  C054R104  HC  < 2e-50  7.20  hemolytic complement  C003R096  ART4  < 2e-50  6.70  adp-ribosyltransferase 4  (dombrock  blood  group) C089R033  SFXN2  C018R078 C139R140  FBP1  < 2e-50  3.70  < 2e-50  6.80  < 2e-50  3.50  sideroflexin 2  fructose-1,6bisphosphatase 1  C210R077  < 2e-50  7.50  376  Probe  Gene Symbol  C042R086 C197R125  SHISA4  p-value  log2 FC  < 2e-50  3.70  < 2e-50  3.10  Description  transmembrane protein 58 precursor  C235R054  C4B  < 2e-50  5.60  complement component 4b (childo blood group)  C147R112  QPCT  < 2e-50  3.80  glutaminyl-peptide cyclotransferase  (glu-  taminyl cyclase) C126R062  < 2e-50  3.70  C063R130  < 2e-50  7.60  < 2e-50  5.90  C098R164  SLC27A2  solute carrier family 27 (fatty acid transporter), member 2  C049R053  COMTD1  < 2e-50  7.70  catechol-omethyltransferase domain containing 1  C041R095  ACT2  < 2e-50  6.80  actin,  alpha sarcom-  eric/cardiac C198R062  CP  < 2e-50  3.80  ceruloplasmin (ferroxidase)  C041R119  PGLYRP2  < 2e-50  6.30  peptidoglycan recognition protein 2  C041R033  < 2e-50  7.50  377  Probe  p-value  log2 FC  C201R127  < 2e-50  4.80  C189R088  < 2e-50  3.90  C184R030  < 2e-50  3.50  < 2e-50  3.40  C177R031  Gene Symbol  HKR1  Description  hansenula mrakii killer toxin-resistant protein 1 precursor  C025R066  SLCO1C1  < 2e-50  5.90  solute carrier organic anion transporter family member 1c1  C258R028  < 2e-50  5.90  C022R069  < 2e-50  6.70  C257R161  < 2e-50  3.20  C149R170  < 2e-50  3.40  C133R139  < 2e-50  5.70  < 2e-50  3.10  C211R062  LRG1  leucine-rich  alpha-2-  glycoprotein 1 C126R050  APLP1  < 2e-50  3.40  amyloid  beta  (a4)  precursor-like protein 1 C093R116 C028R039  MID1IP1A  < 2e-50  7.90  < 2e-50  6.90  gastrulation-specific protein g12  C253R126  ACT2  < 2e-50  6.90  actin,  alpha sarcom-  eric/cardiac  378  Probe  Gene Symbol  C013R107 C196R096  PLG  C090R093 C255R053  NUPR1  p-value  log2 FC  < 2e-50  6.70  < 2e-50  6.30  < 2e-50  7.00  < 2e-50  4.40  Description  plasminogen  p8 protein (candidate of metastasis 1)  C104R041  DNAJC3  < 2e-50  4.30  dnaj (hsp40) homolog, subfamily c, member 3  C065R066  SLC29A1  < 2e-50  5.90  solute 29  carrier  family  (nucleoside  trans-  porters), member 1 C209R080 C187R124  SARDH  < 2e-50  3.30  < 2e-50  3.70  sarcosine nase,  dehydrogemitochondrial  precursor C014R137  PAH  < 2e-50  6.80  phenylalanine-4hydroxylase  C019R059  MST1  < 2e-50  4.20  hepatocyte  growth  factor-like  protein  precursor C046R101  DTNBP1  < 2e-50  3.90  dystrobrevin  binding  protein 1  379  Probe C188R031  Gene Symbol  p-value  log2 FC  SERPINF2  < 2e-50  5.20  Description serine (or cysteine) peptidase inhibitor, clade f, member 2  C130R150  < 2e-50  7.20  C192R100  < 2e-50  5.90  C074R160  < 2e-50  7.30  C264R049  CFH  < 2e-50  5.70  complement factor h  C081R032  HC  < 2e-50  4.70  hemolytic complement  C251R028  < 2e-50  5.80  C233R042  < 2e-50  3.80  < 2e-50  3.70  C075R125  PLA2G12B  phospholipase a2, group xiib  C084R059  NR0B2  < 2e-50  4.10  nuclear receptor subfamily 0, group b, member 2  C159R112  LECT2  < 2e-50  4.80  leukocyte  cell-derived  chemotaxin 2 C138R079 C173R145  ZNF135  < 2e-50  6.50  < 2e-50  5.00  zinc finger protein 135 (clone phz-17)  C074R090  CYP2J2  < 2e-50  3.50  cytochrome  p450,  family 2, subfamily j, polypeptide 2  380  Probe C175R046  Gene Symbol  p-value  log2 FC  Description  ITIH3  < 2e-50  5.10  inter-alpha  (globulin)  inhibitor h3 C205R147  WDR18  C097R110 C177R069  COMTD1  < 2e-50  5.00  < 2e-50  3.70  < 2e-50  7.90  wd repeat domain 18  catechol-omethyltransferase domain containing 1  C030R146  < 2e-50  3.90  C128R027  UPP2  < 2e-50  5.40  uridine phosphorylase 2  C111R100  TEF  < 2e-50  3.00  thyrotrophic embryonic factor  C197R139  < 2e-50  6.40  C176R050  < 2e-50  4.70  C230R036  < 2e-50  6.80  C064R132  < 2e-50  5.30  < 2e-50  6.20  C037R039  CYP4V2|CYP4V2  cytochrome family ily  v,  p450,  4,  subfampolypeptide  2|cytochrome  p450,  family 4, subfamily v, polypeptide 2  381  Probe C227R043  Gene Symbol  p-value  log2 FC  PRG4  < 2e-50  5.50  Description hypothetical similar  to  protein, megakary-  ocyte stimulating factor precursor and cartilage superficial zone protein C218R073  PRPS2  < 2e-50  3.00  ribose-phosphate  py-  rophosphokinase 2 C084R126  XIRP1  < 2e-50  3.50  xin  actin-binding  repeat-containing protein 1 C180R033 C210R004  TDO2B  < 2e-50  7.30  < 2e-50  4.30  tryptophan  2,3-  dioxygenase C137R002  < 2e-50  7.70  C218R007  AQP8  < 2e-50  3.70  aquaporin 8  C119R071  CFH  < 2e-50  8.20  complement factor h  < 2e-50  3.90  C085R124 C126R033  PRSS27  < 2e-50  4.30  protease, serine 27  C263R083  CES2  < 2e-50  5.30  carboxylesterase 2 (intestine, liver)  C243R167  ALLC  < 2e-50  3.90  zgc:91799  C034R030  C2  < 2e-50  5.50  complement c2 precursor  382  Probe C068R161  Gene Symbol  p-value  log2 FC  Description  ITLN1  < 2e-50  4.70  intelectin a  < 2e-50  4.50  < 2e-50  4.30  C018R009 C126R142  CYP2J2  cytochrome  p450,  family 2, subfamily j, polypeptide 2 C184R020  NUCB2  < 2e-50  3.20  nucleobindin 2  C093R050  CYP8B1  < 2e-50  3.40  cytochrome p450, family  8,  subfamily  b,  polypeptide 1 C097R050  SDR16C5  < 2e-50  3.40  epidermal retinal dehydrogenase 2  C261R022  ALDOB  < 2e-50  5.20  aldolase  b,  fructose-  bisphosphate C193R030  ZFP91|U05342  < 2e-50  5.20  ciliary  neurotrophic  factor|zinc finger protein 91 C249R083  DEPTOR  < 2e-50  3.50  dep domain-containing protein 6  C060R054  SLC25A1  < 2e-50  3.00  tricarboxylate  trans-  port protein, mitochondrial precursor  383  Probe C209R001  Gene Symbol  p-value  log2 FC  PNAT10  < 2e-50  4.40  Description arylamine  n-  acetyltransferase, pineal gland isozyme nat-10 C258R095  KMO  < 2e-50  4.50  kynurenine  3-  monooxygenase (kynurenine  3-  hydroxylase) C115R133  PRF1  < 2e-50  3.80  perforin 1 (pore forming protein)  C011R131  COLEC10  < 2e-50  4.20  collectin-10 precursor  C235R133  ITIH2  < 2e-50  6.60  inter-alpha  (globulin)  inhibitor h2 C051R149  < 2e-50  4.60  C082R122  < 2e-50  3.20  < 2e-50  4.20  C020R074  HNF4A  hepatocyte nuclear factor 4-alpha  C111R008  foxa2  < 2e-50  4.90  forkhead box a2  C021R053  SLC29A1  < 2e-50  5.20  solute 29  carrier  family  (nucleoside  trans-  porters), member 1 C178R063  SCO6247  < 2e-50  3.60  allantoinase  384  Probe C207R003  Gene Symbol  p-value  log2 FC  NR0B2  < 2e-50  4.80  Description nuclear receptor subfamily 0, group b, member 2  C217R049  < 2e-50  4.50  C207R122  < 2e-50  3.90  < 2e-50  4.10  C116R044  PCK1  phosphoenolpyruvate carboxykinase 1,  cy-  tosolic C172R152  < 2e-50  5.00  C206R127  < 2e-50  4.80  C176R164  < 2e-50  3.60  < 2e-50  4.50  C093R057  foxa2  DNAJC3  forkhead box a2  dnaj (hsp40) homolog, subfamily c, member 3  C166R126  PCK2  < 2e-50  4.30  phosphoenolpyruvate carboxykinase 2 (mitochondrial)  C150R141  CFB  < 2e-50  5.70  complement factor b  C137R077  DNAJC3  < 2e-50  4.70  dnaj (hsp40) homolog, subfamily c, member 3  C164R049  MTTP  < 2e-50  4.10  microsomal triglyceride transfer protein  C235R018  DIABLO  < 2e-50  6.40  diablo  homolog  (drosophila)  385  Probe  Gene Symbol  C201R032 C236R038  PHYH  p-value  log2 FC  < 2e-50  6.60  < 2e-50  3.10  Description  phytanoyl-coa hydroxylase  C175R112  DPYS  < 2e-50  3.20  dihydropyrimidinase  C049R021  ITLN2  < 2e-50  8.00  intelectin 2  C003R040  PECI  < 2e-50  3.20  peroxisomal  d3,d2-  enoyl-coa isomerase C133R010 C113R166  SLC27A2  < 2e-50  3.00  < 2e-50  4.10  solute carrier family 27 (fatty acid transporter), member 2  C103R067  GPR63  < 2e-50  3.80  g protein-coupled receptor 63  C254R079 C001R112  PUF60  < 2e-50  3.20  < 2e-50  4.70  fuse-binding  protein-  interacting repressor C201R011  COMTD1  < 2e-50  7.70  catechol-omethyltransferase domain containing 1  C146R154  ITLN1  < 2e-50  7.10  intelectin a  C049R031  ADNP  < 2e-50  3.50  activity-dependent neuroprotector  C057R114  < 2e-50  3.50  386  Probe  Gene Symbol  C198R010 C069R048  PBLD2  p-value  log2 FC  < 2e-50  6.50  < 2e-50  3.10  Description  phenazine biosynthesislike domain-containing protein 2  C153R100  APOA4  < 2e-50  7.50  apolipoprotein a-iv  C017R008  ITIH3  < 2e-50  5.90  inter-alpha  (globulin)  inhibitor h3 C096R017  KMO  < 2e-50  4.90  kynurenine  3-  monooxygenase (kynurenine  3-  hydroxylase) C097R094  PKM2  < 2e-50  5.30  cytosolic  thyroid  hormone binding protein/pyruvate  kinase  type m2 C009R140  STEAP4  < 2e-50  4.80  steap family member 4  C181R021  CIDEB  < 2e-50  3.40  cell death-inducing dna fragmentation alpha  factor,  subunit-like  effector b C219R011  TFCP2L1  < 2e-50  5.50  transcription  factor  cp2-like 1  387  Probe C165R037  Gene Symbol  p-value  log2 FC  ACSS2  < 2e-50  3.30  Description acyl-coa  synthetase  short-chain  family  member 2 C110R060  UGT2A2  < 2e-50  3.90  udpglucuronosyltransferase 2a2 precursor  C042R136 C255R056  G6PC  < 2e-50  7.00  < 2e-50  4.40  glucose-6-phosphatase, catalytic  (glycogen  storage disease type i, von gierke disease) C124R111  CREB3L3  < 2e-50  5.00  camp-responsive element-binding protein 3-like protein 3-a  C254R083  CTSO  < 2e-50  3.20  cathepsin o  C230R033  F7  < 2e-50  7.40  coagulation factor vii precursor  C064R107 C126R106  ACOT3  C177R064 C113R129  MFAP4  < 2e-50  4.60  < 2e-50  4.30  < 2e-50  4.00  < 2e-50  8.20  acyl-coa thioesterase 3  microfibrillarassociated  protein  4  388  Probe  Gene Symbol  p-value  log2 FC  Description  C139R073  NUCB2  < 2e-50  4.00  nucleobindin 2  C082R080  ASMTL  < 2e-50  3.70  acetylserotonin  o-  methyltransferase-like C119R111  foxa2  < 2e-50  4.40  forkhead box a2  C077R134  ALDH6A1  < 2e-50  4.10  aldehyde  dehydroge-  nase family 6, subfamily a1 C195R073  F9  < 2e-50  4.50  coagulation  factor  ix  (plasma thromboplastic component,  christmas  disease, hemophilia b) C204R061 C038R004  IL1R1  < 2e-50  5.20  < 2e-50  3.10  interleukin-1  receptor  type i precursor C107R097  PDK3  < 2e-50  3.80  pyruvate dehydrogenase kinase, isoenzyme 3  C264R124 C033R147  CYP24A1  < 2e-50  4.10  < 2e-50  5.20  cytochrome p450, family 24,  subfamily a,  polypeptide 1 C199R106 C124R161  FTCD  < 2e-50  3.20  < 2e-50  5.10  formiminotransferase cyclodeaminase  389  Probe C162R149  Gene Symbol  p-value  log2 FC  FTCD  < 2e-50  5.20  Description formiminotransferase cyclodeaminase  C094R132  P4HA1  < 2e-50  3.40  procollagen-proline, 2-oxoglutarate dioxygenase  4(proline  4-hydroxylase),  alpha  polypeptide ii C031R022  SORD  < 2e-50  3.10  sorbitol dehydrogenase  C193R045  ELOVL6  < 2e-50  5.00  elovl family member 6, elongation of long chain fatty acids (yeast)  C236R166  MUG1  < 2e-50  5.00  murinoglobulin 1  C013R030  PLG  < 2e-50  6.90  plasminogen  C001R133  MINPP1  < 2e-50  4.10  multiple  inositol  polyphosphate tidine  his-  phosphatase  1 C125R012  U05342|ZFP91  < 2e-50  3.60  zinc  finger  protein  91|ciliary neurotrophic factor C178R151 C150R082 C252R122  STEAP4  < 2e-50  4.80  < 2e-50  3.90  < 2e-50  5.40  steap family member 4  390  Probe C195R083  Gene Symbol  p-value  log2 FC  CYP24A1  < 2e-50  5.70  Description cytochrome p450, family 24,  subfamily a,  polypeptide 1 C076R063  PBLD  < 2e-50  3.60  phenazine biosynthesislike domain-containing protein  C234R030 C147R040  DNM2  C235R074 C015R154  KMO  < 2e-50  3.30  < 2e-50  4.00  < 2e-50  5.90  < 2e-50  4.80  dynamin-2  kynurenine  3-  monooxygenase (kynurenine  3-  hydroxylase) C162R004  UGT1A2  < 2e-50  3.40  udp glucuronosyltransferase 1 family, polypeptide a2  C184R064  HAL  < 2e-50  6.30  histidine ammonia lyase  C266R036  GRN  < 2e-50  3.10  granulin  C067R165  < 2e-50  5.60  C070R155  < 2e-50  4.70  < 2e-50  3.00  C120R089  DHRS13  riken cdna 2610209n15 gene  C205R096  < 2e-50  7.80  391  Probe C050R021  Gene Symbol  p-value  log2 FC  Glud1  < 2e-50  3.20  Description glutamate  dehydroge-  nase 1 C089R059  < 2e-50  3.50  C262R149  < 2e-50  6.30  < 2e-50  4.30  C037R087  NR0B2  nuclear receptor subfamily 0, group b, member 2  C029R083  < 2e-50  3.10  C050R139  < 2e-50  7.90  C064R157  < 2e-50  5.20  C251R073  ALLC  < 2e-50  4.80  zgc:91799  C130R009  ASMTL  < 2e-50  3.00  acetylserotonin  o-  methyltransferase-like C111R070 C053R152  TYMP  < 2e-50  4.30  < 2e-50  4.10  thymidine  phosphory-  lase C230R165  ZP4  < 2e-50  6.60  zona pellucida glycoprotein 4  C053R105  ALDH1L2  < 2e-50  3.20  probable  10-  formyltetrahydrofolate dehydrogenase aldh1l2  392  Probe C251R144  Gene Symbol  p-value  log2 FC  ITGAX  < 2e-50  3.60  Description integrin, alpha x (complement component 3 receptor 4 subunit)  C087R153 C075R021  PHYHD1  < 2e-50  5.70  < 2e-50  3.10  phytanoyl-coa dioxygenase domain-containing protein 1  C143R083  C7  < 2e-50  4.70  complement component 7  C041R060  UGT2A1  < 2e-50  3.40  udp glucuronosyltransferase 2 family, polypeptide a1  C237R122  UGT1A9  < 2e-50  3.20  udpglucuronosyltransferase 1-9 precursor  C146R022  F9  < 2e-50  5.00  coagulation  factor  ix  (plasma thromboplastic component,  christmas  disease, hemophilia b) C039R053  < 2e-50  5.80  < 2e-50  5.30  C247R082  < 2e-50  4.10  C127R051  < 2e-50  4.20  C030R107  STEAP4  steap family member 4  393  Probe  Gene Symbol  C101R129 C218R096  C3  p-value  log2 FC  < 2e-50  4.50  < 2e-50  3.30  Description  complement component 3  C104R112 C123R157  CYP7A1  < 2e-50  3.30  < 2e-50  5.00  cytochrome p450, family  7,  subfamily  a,  polypeptide 1 C138R074 C018R058  PYGL  < 2e-50  4.00  < 2e-50  3.10  glycogen  phosphory-  lase, liver form C173R141  < 2e-50  3.10  C121R131  < 2e-50  5.90  C135R141  < 2e-50  3.60  < 2e-50  6.20  C158R024  ZP4  zona pellucida glycoprotein 4  C135R087  ADK  < 2e-50  3.00  adenosine kinase  C139R106  MYCBP2  < 2e-50  3.10  probable e3 ubiquitinprotein ligase mycbp2  C172R104  F5  < 2e-50  5.30  coagulation (proaccelerin,  factor  labile  factor) C241R103  < 2e-50  v  6.00  394  Probe C120R007  Gene Symbol  p-value  log2 FC  QPCT  < 2e-50  3.20  Description glutaminyl-peptide cyclotransferase  (glu-  taminyl cyclase) C226R119 C169R109  ITIH2  < 2e-50  4.20  < 2e-50  5.60  inter-alpha  (globulin)  inhibitor h2 C265R053  < 2e-50  5.80  C245R106  < 2e-50  3.00  < 2e-50  3.80  C230R156  UGT1A6  udpglucuronosyltransferase 1-6 precursor  C253R012  APOA4  < 2e-50  5.20  apolipoprotein a-iv  C105R105  STEAP4  < 2e-50  5.20  steap family member 4  C209R018  USP28  < 2e-50  4.10  ubiquitin specific peptidase 28  C039R070 C023R065  CRIM1  < 2e-50  5.50  < 2e-50  3.30  cysteine rich transmembrane bmp regulator 1 (chordin-like)  C251R103 C113R048  XDH  < 2e-50  3.90  < 2e-50  4.50  xanthine dehydrogenase  395  Probe C206R122  Gene Symbol  p-value  log2 FC  Description  IGFBP2A  < 2e-50  4.80  insulin-like  growth  factor-binding protein 2 precursor C134R089  < 2e-50  3.40  C071R161  < 2e-50  6.20  C169R146  < 2e-50  3.60  < 2e-50  3.80  C138R029  MAT2A  methionine  adenosyl-  transferase ii, alpha C184R113  UCP3  < 2e-50  5.80  uncoupling  protein  3  (mitochondrial, proton carrier) C128R016 C151R107  AKR1B1  < 2e-50  4.40  < 2e-50  3.20  aldo-keto  reductase  family 1, member b1 (aldose reductase) C093R004 C245R076  BAAT  < 2e-50  5.20  4.22e-49  5.30  bile a:  acid-coenzyme amino  acid  acyltransferase  396  n-  Probe C042R055  Gene Symbol  p-value  CYP4V2|CYP4V2  3.26e-47  log2 FC  Description  3.10  cytochrome family ily  p450,  4,  v,  subfampolypeptide  2|cytochrome  p450,  family 4, subfamily v, polypeptide 2 C084R003  SLC2A2  2.19e-45  4.00  solute 2,  carrier  family  facilitated glucose  transporter member 2 C143R103  ST3GAL4  3.22e-44  3.30  cmp-nacetylneuraminatebeta-galactosamidealpha-2,3sialyltransferase  C161R148  IGFBP1  7.15e-44  5.90  insulin-like  growth  factor-binding protein 1 precursor C038R167  1.09e-43  3.20  C042R127  1.89e-42  3.50  C097R144  5.54e-42  5.70  8.21e-42  3.30  C255R112  PLXNB3  ITIH4  plexin-b3 precursor  inter-alpha-trypsin  in-  hibitor heavy chain h4 precursor  397  Probe  Gene Symbol  p-value  log2 FC  C027R095  1.46e-41  3.90  C260R076  1.55e-41  5.00  C132R074  1.81e-37  6.50  C078R006  2.90e-37  5.10  3.34e-37  3.80  C259R026  TAT  Description  tyrosine  aminotrans-  ferase C082R088 C236R035  DGAT2  6.75e-35  3.40  1.50e-33  3.20  diacylglycerol  o-  acyltransferase homolog 2 (mouse) C043R129  CYP24A1  1.62e-33  4.20  cytochrome p450, family 24,  subfamily a,  polypeptide 1 C002R063  2.73e-32  4.10  C182R074  2.95e-32  4.10  1.07e-31  3.60  C244R066  ENTPD8  ectonucleoside triphosphate diphosphohydrolase 8  C100R072  CDH17  2.14e-31  3.80  cadherin 17, li cadherin (liver-intestine)  C156R114  9.99e-31  3.20  C240R110  3.16e-30  5.20  1.17e-28  3.10  C252R030  A2M  alpha-2-macroglobulin  398  Probe C162R131  Gene Symbol  p-value  CDH17  1.74e-28  log2 FC 3.60  Description cadherin 17, li cadherin (liver-intestine)  C007R039  SLC2A2  2.90e-26  3.30  solute 2,  carrier  family  facilitated glucose  transporter member 2 C046R102  PHYHD1  2.16e-25  4.60  phytanoyl-coa dioxygenase domain-containing protein 1  C139R075  6.54e-24  3.20  C197R085  9.65e-24  4.40  3.46e-23  3.30  5.73e-21  3.10  C150R016  F10  C115R035  coagulation factor x  C035R008  GCK  8.64e-20  4.20  glucokinase  C138R086  MGEA5  2.20e-19  4.00  meningioma pressed  ex-  antigen  5  (hyaluronidase) C001R132 C016R121  NR5A2  4.46e-18  3.70  2.25e-16  5.20  nuclear receptor subfamily 5, group a, member 2  C033R164  AHSG  2.63e-16  3.60  alpha-2-hs-glycoprotein precursor  399  Probe C009R111  Gene Symbol  p-value  GATA4-B  2.91e-15  log2 FC 3.00  Description transcription  factor  gata-4 C138R093  3.71e-15  5.30  C217R117  2.24e-08  3.40  C260R104  4.94e-07  3.30  2.05e-06  4.60  4.54e-05  4.60  C171R035  CLDN3  C116R150  claudin 3  C158R107  CHIA  0.000565  3.20  chitinase, acidic  C052R084  ACY1  0.000603  3.80  riken cdna 1110014j22 gene  B.4  Muscle-Specific Probes Probe  Gene Symbol  C001R048  p-value  log2 FC  < 2e-50  7.20  Description  C004R153  TMOD4  < 2e-50  6.80  tropomodulin 4  C011R069  ALDOA  < 2e-50  6.30  aldolase a  C011R086  CKM|CKM  < 2e-50  6.30  creatine  kinase,  muscle|creatine  ki-  nase, muscle C011R098  TMOD4  < 2e-50  7.00  tropomodulin 4  C011R110  Casq1  < 2e-50  6.70  calsequestrin 1 (fasttwitch, skeletal muscle) 400  Probe  Gene Symbol  p-value  log2 FC  Description  C013R018  TMOD4  < 2e-50  5.60  tropomodulin 4  C013R052  SLC25A5  < 2e-50  5.30  solute carrier family 25 (mitochondrial carrier; adenine  nucleotide  translocator), member 5 C013R062  < 2e-50  7.00  C017R120  < 2e-50  4.20  C021R009  LDB3  < 2e-50  7.30  lim domain binding 3  C021R126  EHBP1L1  < 2e-50  3.20  eh domain binding protein 1-like 1  C031R029  PGM1  < 2e-50  5.20  phosphoglucomutase 1  C032R090  BCAP29  < 2e-50  6.70  b-cell associated  receptorprotein  29 C034R016 C035R145  GAPDH  < 2e-50  4.00  < 2e-50  6.00  glyceraldehyde-3phosphate  dehydroge-  nase C036R025  ACTA1  < 2e-50  6.80  actin, alpha 1, skeletal muscle  C037R041  GPI  < 2e-50  4.50  glucose phosphate isomerase  401  Probe C039R088  Gene Symbol  p-value  log2 FC  CKM|CKM  < 2e-50  6.90  Description creatine  kinase,  muscle|creatine  ki-  nase, muscle C041R012  CKMT2  < 2e-50  6.50  similar to creatine kinase, mitochondrial 2  C041R082  CKM|CKM  < 2e-50  7.10  creatine  kinase,  muscle|creatine  ki-  nase, muscle C043R053  < 2e-50  7.30  < 2e-50  5.70  C044R153  < 2e-50  6.50  C045R080  < 2e-50  7.90  C046R157  < 2e-50  4.40  C047R005  < 2e-50  3.90  C043R152  ALDOA  aldolase a  C048R081  BRP16  < 2e-50  7.90  brain protein 16  C049R003  ENO3  < 2e-50  4.00  enolase 1, (alpha)  C050R084  ALDOA  < 2e-50  5.30  aldolase a  C050R123  < 2e-50  7.20  C051R017  < 2e-50  7.10  C052R013  < 2e-50  4.90  < 2e-50  4.60  C052R082  EEF2  eukaryotic  translation  elongation factor 2 C052R144  ENO3  < 2e-50  5.30  enolase 1, (alpha)  402  Probe  p-value  log2 FC  C056R120  < 2e-50  6.40  C057R103  < 2e-50  6.40  < 2e-50  4.30  < 2e-50  5.80  < 2e-50  5.80  C058R020  Gene Symbol  ENO3  C058R047 C058R099  KBTBD12  Description  enolase 1, (alpha)  kelch  domain-  containing  protein  6 C061R059  PACSIN2  < 2e-50  4.20  protein kinase c and casein kinase substrate in neurons 2  C061R079  CKM|CKM  < 2e-50  6.20  creatine  kinase,  muscle|creatine  ki-  nase, muscle C061R134  NEXN  < 2e-50  4.80  nexilin  C061R152  NEFH  < 2e-50  5.40  neurofilament,  heavy  polypeptide 200kda C062R053  CKM|CKM  < 2e-50  6.00  creatine  kinase,  muscle|creatine  ki-  nase, muscle C063R112  RPL3  C064R031 C065R163  OLA1  < 2e-50  4.80  < 2e-50  7.10  < 2e-50  6.60  ribosomal protein l3  gtp-binding  protein  ptd004  403  Probe  Gene Symbol  p-value  log2 FC  TMOD4  < 2e-50  5.40  < 2e-50  8.60  < 2e-50  5.80  C073R054  < 2e-50  5.80  C077R050  < 2e-50  4.40  < 2e-50  4.40  C066R135 C068R078 C073R030  C080R099  ALDOA  BVES  Description tropomodulin 4  aldolase a  blood vessel epicardial substance  C080R132 C083R044  LDB3  C084R060  < 2e-50  6.10  < 2e-50  6.90  < 2e-50  5.70  lim domain binding 3  C086R055  SVIL  < 2e-50  3.10  supervillin  C088R005  ADSSL1  < 2e-50  4.50  adenylosuccinate  syn-  thase like 1 C088R131  < 2e-50  5.50  C089R011  < 2e-50  4.20  C089R021  < 2e-50  4.30  C089R155  < 2e-50  7.20  C090R012  < 2e-50  4.80  < 2e-50  4.90  C091R132  TMOD4  ACT2  tropomodulin 4  actin,  alpha sarcom-  eric/cardiac C091R142  ACT2  < 2e-50  5.20  actin,  alpha sarcom-  eric/cardiac C092R085  < 2e-50  4.90  404  Probe  Gene Symbol  C094R044  p-value  log2 FC  < 2e-50  6.20  Description  C096R058  TMOD4  < 2e-50  5.40  tropomodulin 4  C096R154  ADSL  < 2e-50  3.80  adenylosuccinate lyase  C097R071  < 2e-50  5.30  C097R079  < 2e-50  3.90  C097R124  < 2e-50  6.70  C100R066  < 2e-50  5.00  < 2e-50  7.80  C100R102  MYBPH  myosin binding protein h  C102R103  ALDOA  < 2e-50  4.30  aldolase a  C105R061  TMOD2  < 2e-50  4.70  tropomodulin 2  C107R100  LDB3  < 2e-50  6.70  lim domain binding 3  C107R168  KCNJ11  < 2e-50  4.50  potassium inwardly rectifying channel, subfamily j, member 11  C109R049  < 2e-50  6.80  C109R074  TMOD4  < 2e-50  5.40  tropomodulin 4  C110R039  Casq1  < 2e-50  6.90  calsequestrin 1 (fasttwitch, skeletal muscle)  C111R047  KBTBD10  < 2e-50  6.70  kelch repeat and btb (poz) domain containing 10  C111R078  < 2e-50  4.20  405  Probe  Gene Symbol  p-value  log2 FC  C114R022  < 2e-50  5.70  C114R152  < 2e-50  4.60  Description  C114R170  TMOD4  < 2e-50  5.40  tropomodulin 4  C117R014  ALDOA  < 2e-50  4.80  aldolase a  C117R081  ALDOA  < 2e-50  5.00  aldolase a  C120R082  FBP2  < 2e-50  6.90  fructose-1,6bisphosphatase 2  C120R105  CKM|CKM  < 2e-50  7.60  creatine  kinase,  muscle|creatine  ki-  nase, muscle C121R015  ATP2A2  < 2e-50  5.00  atpase,  ca++  trans-  porting, cardiac muscle, slow twitch 2 C122R068  THTPA  < 2e-50  4.70  thiamine  triphos-  phatase C122R076  MYOZ1  C124R105 C125R071  SMYD1  < 2e-50  7.30  < 2e-50  6.80  < 2e-50  6.00  myozenin 1  set and mynd domain containing 1  C128R073  CKM|CKM  < 2e-50  7.20  creatine  kinase,  muscle|creatine nase, muscle  406  ki-  Probe C128R160  Gene Symbol  p-value  log2 FC  CKM|CKM  < 2e-50  8.40  Description creatine  kinase,  muscle|creatine  ki-  nase, muscle C129R017  PGM1  < 2e-50  3.50  phosphoglucomutase 1  C130R010  ALDOA  < 2e-50  4.50  aldolase a  C130R051  PTGES3  < 2e-50  5.40  prostaglandin  e  syn-  thase 3 (cytosolic) C131R165 C133R072  TMOD4  C133R136 C135R074  KBTBD10  < 2e-50  7.30  < 2e-50  5.60  < 2e-50  5.60  < 2e-50  5.80  tropomodulin 4  kelch repeat and btb (poz) domain containing 10  C137R129  CKM|CKM  < 2e-50  7.60  creatine  kinase,  muscle|creatine  ki-  nase, muscle C138R017  BCAP29  < 2e-50  6.50  b-cell  receptor-  associated  protein  29 C138R045  PYGM  < 2e-50  5.40  phosphorylase, gen;  glyco-  muscle (mcardle  syndrome,  glycogen  storage disease type v)  407  Probe  Gene Symbol  p-value  log2 FC  C138R096  ALDOA  < 2e-50  6.60  aldolase a  C139R078  TMOD4  < 2e-50  6.30  tropomodulin 4  < 2e-50  7.00  < 2e-50  7.40  C143R060  < 2e-50  6.50  C143R170  < 2e-50  4.80  < 2e-50  6.30  C140R023 C142R098  C146R105  LDB3  PYGM  Description  lim domain binding 3  phosphorylase, gen;  glyco-  muscle (mcardle  syndrome,  glycogen  storage disease type v) C147R141  ALDOA  C149R059  < 2e-50  4.40  < 2e-50  5.60  aldolase a  C149R123  NEXN  < 2e-50  5.00  nexilin  C149R131  ACT2  < 2e-50  4.00  actin,  alpha sarcom-  eric/cardiac C150R120  TMOD4  < 2e-50  5.50  tropomodulin 4  C150R133  ACT2  < 2e-50  5.20  actin,  alpha sarcom-  eric/cardiac C152R055  KBTBD10  < 2e-50  7.10  kelch repeat and btb (poz) domain containing 10  C157R054  ACT2  < 2e-50  7.00  actin,  alpha sarcom-  eric/cardiac  408  Probe  p-value  log2 FC  C157R130  < 2e-50  5.80  C158R106  < 2e-50  5.50  C158R110  < 2e-50  6.40  C162R146  < 2e-50  5.10  < 2e-50  3.90  C165R018  Gene Symbol  USP28  Description  ubiquitin specific peptidase 28  C169R048  HSPA8|HSPA8  < 2e-50  4.80  heat shock 70kda protein 8|heat shock 70kda protein 8  C169R138  < 2e-50  6.50  C172R021  ENO3  < 2e-50  6.40  enolase 1, (alpha)  C172R083  TMOD4  < 2e-50  5.50  tropomodulin 4  C177R017  < 2e-50  8.60  C177R095  < 2e-50  6.70  C177R165  TMOD4  < 2e-50  5.40  tropomodulin 4  C178R027  ALDOA  < 2e-50  5.20  aldolase a  C180R001  TMOD4  < 2e-50  5.40  tropomodulin 4  C180R083  TMOD4  < 2e-50  5.40  tropomodulin 4  C181R002  FAM135A  < 2e-50  4.20  protein fam135a  C181R064  GAMT  < 2e-50  3.50  zgc:123136  C181R109  < 2e-50  5.90  C182R138  < 2e-50  7.70  < 2e-50  5.50  C185R090  TMOD4  tropomodulin 4  409  Probe C186R086  Gene Symbol  p-value  log2 FC  GPI  < 2e-50  5.70  Description glucose phosphate isomerase  C187R131  BIN1  < 2e-50  6.70  myc  box-dependent-  interacting  protein  1 C188R025  < 2e-50  5.70  < 2e-50  5.60  C190R137  < 2e-50  4.10  C192R010  < 2e-50  8.30  < 2e-50  5.10  C201R021  < 2e-50  6.50  C201R161  < 2e-50  5.10  < 2e-50  5.20  C189R154  C194R145  C202R123  TRDN  RPL3  SH3BGR  triadin  ribosomal protein l3  sh3-binding glutamic  domain acid-rich  protein C202R141  ABRA  < 2e-50  6.80  actin-binding  rho-  activating protein C204R023  < 2e-50  5.90  C204R026  < 2e-50  6.50  < 2e-50  4.80  C204R032  ACT2  actin,  alpha sarcom-  eric/cardiac C207R091  < 2e-50  7.60  410  Probe C209R077  Gene Symbol  p-value  log2 FC  ACT2  < 2e-50  5.30  Description actin,  alpha sarcom-  eric/cardiac C209R101  Casq1  < 2e-50  7.50  calsequestrin 1 (fasttwitch, skeletal muscle)  C209R137 C211R109  SMYD2  < 2e-50  5.90  < 2e-50  4.30  set and mynd domain containing 2  C212R042  ACT2  < 2e-50  8.30  actin,  alpha sarcom-  eric/cardiac C215R019 C215R154  ALDOA  C216R035 C219R020  PACSIN2  < 2e-50  5.70  < 2e-50  4.40  < 2e-50  4.40  < 2e-50  4.80  aldolase a  protein kinase c and casein kinase substrate in neurons 2  C219R093  ACT2  < 2e-50  5.00  actin,  alpha sarcom-  eric/cardiac C222R148  DHRS7B  < 2e-50  7.30  dehydrogenase/reductase sdr family member 7b  C223R041  SMYD1  < 2e-50  7.10  set and mynd domain containing 1  C223R058  PGAM2  < 2e-50  5.20  phosphoglycerate tase 2 (muscle)  411  mu-  Probe C223R085  Gene Symbol  p-value  log2 FC  ASB2  < 2e-50  4.40  Description ankyrin repeat and socs box-containing protein 2  C223R110  < 2e-50  5.70  C226R069  < 2e-50  7.00  C227R053  < 2e-50  5.50  C228R019  < 2e-50  6.40  C228R110  < 2e-50  5.30  < 2e-50  8.40  C229R132  SMYD1  set and mynd domain containing 1  C230R014 C232R115  ACT2  < 2e-50  6.90  < 2e-50  5.40  actin,  alpha sarcom-  eric/cardiac C232R135 C233R105  PGM2  C233R116 C233R148  CKM|CKM  < 2e-50  7.40  < 2e-50  3.20  < 2e-50  6.60  < 2e-50  5.40  zgc:77113  creatine  kinase,  muscle|creatine  ki-  nase, muscle C233R164  DCUN1D2  < 2e-50  4.40  dcn1, defective in cullin neddylation 1, domain containing 2 (s. visiae)  412  cere-  Probe C234R096  Gene Symbol  p-value  log2 FC  DHRS7B  < 2e-50  6.30  Description dehydrogenase/reductase sdr family member 7b  C234R098  TRIM35|TRIM35  < 2e-50  7.20  tripartite  motif-  containing 35|tripartite motif-containing 35 C238R086  < 2e-50  5.60  C241R052  < 2e-50  4.80  C243R059  < 2e-50  7.40  C243R110  < 2e-50  4.90  C244R022  ALDOA  < 2e-50  4.20  aldolase a  C246R003  MYBPC2  < 2e-50  7.40  myosin binding protein c, fast-type  C247R085  ACT2  < 2e-50  5.00  actin,  alpha sarcom-  eric/cardiac C249R080  < 2e-50  7.40  C250R111  < 2e-50  4.70  C250R114  < 2e-50  3.40  < 2e-50  6.00  C250R130  ACT2  actin,  alpha sarcom-  eric/cardiac C253R048  TMOD4  < 2e-50  6.20  tropomodulin 4  C258R089  ACT2  < 2e-50  5.20  actin,  alpha sarcom-  eric/cardiac C260R157  ENO3  < 2e-50  4.50  enolase 1, (alpha)  413  Probe  Gene Symbol  p-value  log2 FC  Description  C261R071  TMOD4  < 2e-50  5.50  tropomodulin 4  C261R148  TPI1  < 2e-50  4.30  triosephosphate  iso-  merase 1 C263R053  < 2e-50  6.70  C263R118  PGM2  < 2e-50  3.50  zgc:77113  C264R043  TMOD4  < 2e-50  5.60  tropomodulin 4  C060R130  < 2e-50  6.90  C094R169  < 2e-50  4.90  C206R039  < 2e-50  5.10  < 2e-50  6.60  C178R056  PHS1  hypothetical 24.5 kda protein in sap185-bck1 intergenic region  C167R036  < 2e-50  6.20  C053R083  < 2e-50  3.90  C247R045  < 2e-50  3.50  < 2e-50  6.40  C039R055  HRC  histidine rich calcium binding protein  C196R133  CKM|CKM  < 2e-50  8.20  creatine  kinase,  muscle|creatine  ki-  nase, muscle C154R103  Casq1  < 2e-50  6.10  calsequestrin 1 (fasttwitch, skeletal muscle)  414  Probe C203R149  Gene Symbol  p-value  log2 FC  FSD2  < 2e-50  3.70  Description fibronectin type iii and spry domain-containing protein 2  C066R056  INO80D  < 2e-50  5.80  uncharacterized protein flj20309  C165R106  < 2e-50  4.20  C056R129  ALDOA  < 2e-50  3.40  aldolase a  C084R040  MATR3  < 2e-50  4.70  matrin 3  C138R160  LDB3  < 2e-50  7.40  lim domain binding 3  C263R019  MYBPC2  < 2e-50  6.10  myosin binding protein c, fast-type  C123R152 C028R126  MYBPC2  < 2e-50  6.20  < 2e-50  7.20  myosin binding protein c, fast-type  C184R078  ABRA  < 2e-50  6.20  actin-binding  rho-  activating protein C256R040  PQLC3  < 2e-50  4.50  pq loop repeat containing 3  C209R068  SMYD1  < 2e-50  7.70  set and mynd domain containing 1  C205R090  CDK12  < 2e-50  3.70  cell division cycle 2related protein kinase 7  415  Probe C016R125  Gene Symbol  p-value  log2 FC  RAMP1  < 2e-50  3.80  Description receptor (calcitonin) activity modifying protein 1  C185R162  ASPH  < 2e-50  4.90  aspartate  beta-  hydroxylase C150R023  < 2e-50  6.10  C117R125  < 2e-50  3.20  < 2e-50  4.10  C107R157  ADSSL1  adenylosuccinate  syn-  thase like 1 C141R134 C122R020  TXNIP  < 2e-50  4.60  < 2e-50  5.30  thioredoxin interacting protein  C156R098  TXLNB  < 2e-50  6.20  taxilin beta  C028R026  KLHL31  < 2e-50  6.20  riken cdna d930047p17 gene  C113R132  < 2e-50  3.20  C191R067  < 2e-50  3.10  < 2e-50  3.00  C107R158  FSD2  fibronectin type iii and spry domain-containing protein 2  C113R134  PGK1  < 2e-50  4.40  phosphoglycerate nase 1  416  ki-  Probe C019R161  Gene Symbol  p-value  log2 FC  APOBEC2  < 2e-50  6.90  Description apolipoprotein b mrna editing  enzyme,  cat-  alytic polypeptide-like 2 C116R033  KBTBD12  < 2e-50  5.00  kelch  domain-  containing  protein  6 C247R010  KBTBD12  < 2e-50  3.50  kelch  domain-  containing  protein  6 C073R146  GAPDH  < 2e-50  4.60  glyceraldehyde-3phosphate  dehydroge-  nase C243R062  DCUN1D2  < 2e-50  3.70  dcn1, defective in cullin neddylation 1, domain containing 2 (s.  cere-  visiae) C053R010  GPI  < 2e-50  4.90  glucose phosphate isomerase  C098R135 C064R038  CAV3  < 2e-50  4.60  < 2e-50  4.00  caveolin 3  417  Probe C241R063  Gene Symbol  p-value  log2 FC  CHORDC1  < 2e-50  5.30  Description cysteine and histidinerich  domain (chord)-  containing, zinc binding protein 1 C129R137  < 2e-50  5.40  C180R068  < 2e-50  3.30  < 2e-50  5.30  C162R060  SCAMP1  riken cdna 4930505m11 gene  C243R143 C038R169  PGM2  C007R024 C071R143  SRL  C201R067 C040R052  AMPD1  < 2e-50  5.30  < 2e-50  4.70  < 2e-50  5.80  < 2e-50  5.60  < 2e-50  4.50  < 2e-50  7.30  zgc:77113  im:6899248  adenosine phate  monophos-  deaminase  1  (isoform m) C220R073  USP28  < 2e-50  3.30  ubiquitin specific peptidase 28  C186R105  BAG2  < 2e-50  3.80  bcl2-associated athanogene 2  C208R072  MYOZ2  < 2e-50  4.70  zgc:77803  C248R149  ACYP2  < 2e-50  3.30  acylphosphatase-2  < 2e-50  3.60  C188R003  418  Probe  Gene Symbol  C113R055 C168R075  DUSP27  p-value  log2 FC  < 2e-50  6.50  < 2e-50  3.50  Description  inactive dual specificity phosphatase 27  C177R052  ALDH3A2  < 2e-50  3.90  aldehyde  dehydroge-  nase 3 family, member a2 C084R051  MYOM2  < 2e-50  6.40  myomesin  (m-protein)  2, 165kda C248R166  < 2e-50  3.00  C047R084  P2RX5  < 2e-50  6.20  p2x purinoceptor 5  C081R030  PTGFR  < 2e-50  3.30  prostaglandin f2-alpha receptor  C067R069  DD25  < 2e-50  4.60  hypothetical  protein  dd25 C252R039  < 2e-50  4.20  C027R168  < 2e-50  5.10  < 2e-50  3.60  C118R017  APOBEC2  apolipoprotein b mrna editing  enzyme,  cat-  alytic polypeptide-like 2 C243R073  TMEM38A  < 2e-50  5.60  zgc:77831  C165R169  ASPH  < 2e-50  6.90  aspartate  beta-  hydroxylase  419  Probe C187R085  Gene Symbol  p-value  log2 FC  ADSSL1  < 2e-50  4.00  Description adenylosuccinate  syn-  thase like 1 C054R062  NNT  < 2e-50  3.60  nicotinamide nucleotide transhydrogenase  C182R001  < 2e-50  6.20  C148R033  DES  < 2e-50  6.40  desmin  C143R091  Cmya5  < 2e-50  4.70  cardiomyopathy associated 5  C113R060  < 2e-50  5.20  C018R117  < 2e-50  3.00  < 2e-50  3.10  C181R149  PHKB  phosphorylase  kinase,  beta C086R149 C142R032  CHORDC1  < 2e-50  6.10  < 2e-50  5.80  cysteine and histidinerich  domain (chord)-  containing, zinc binding protein 1 C153R070  < 2e-50  4.80  C123R099  RNF115  < 2e-50  3.20  zinc finger protein 364  C138R117  MYH3  < 2e-50  4.30  myosin-3  C120R157  ALDOA  < 2e-50  7.70  aldolase a  C121R093  < 2e-50  7.90  C197R063  < 2e-50  3.40  420  Probe  Gene Symbol  p-value  log2 FC  < 2e-50  5.60  < 2e-50  7.10  C253R018  < 2e-50  4.70  C133R137  < 2e-50  3.10  < 2e-50  6.80  C224R049 C261R044  C133R131  ACTN4  SLC25A5  Description  alpha-actinin-4  solute carrier family 25 (mitochondrial carrier; adenine  nucleotide  translocator), member 5 C195R054  < 2e-50  7.30  C104R105  < 2e-50  5.80  C170R035  < 2e-50  6.90  C173R066  ZGC:158664  < 2e-50  7.60  ptrf/sdpr family protein  C159R015  NEXN  < 2e-50  5.20  nexilin  C110R031  IGSF22  < 2e-50  8.60  immunoglobulin superfamily member 22  C032R054  AGL  < 2e-50  3.60  amylo-1, glucosidase,  64-alpha-  glucanotransferase (glycogen  debranch-  ing enzyme, glycogen storage disease type iii)  421  Probe C101R086  Gene Symbol  p-value  log2 FC  METTL11A  < 2e-50  3.40  Description upf0351 protein c9orf32 homolog  C253R132 C263R147  TRAFD1  < 2e-50  3.70  < 2e-50  4.30  traf-type  zinc  finger  domain-containing protein 1 C136R053  PDLIM7  < 2e-50  5.30  pdz and lim domain 7  C053R089  TTN|TTN  < 2e-50  5.60  titin|titin  C096R146  NUP188  < 2e-50  3.40  nucleoporin nup188 homolog  C157R001 C066R097  ITGB1BP3  < 2e-50  3.40  < 2e-50  5.60  integrin beta 1 binding protein 3  C078R139 C063R057  TXNIP  < 2e-50  6.20  < 2e-50  5.10  thioredoxin interacting protein  C192R139  SRL  < 2e-50  5.50  im:6899248  C192R154  HOXB8A  < 2e-50  3.40  homeo box b8a  C128R066  < 2e-50  3.80  C020R012  < 2e-50  3.80  C237R101  < 2e-50  3.50  < 2e-50  3.10  C079R073  CFL2  cofilin 2, muscle  422  Probe C210R081  Gene Symbol  p-value  log2 FC  SLC25A12  < 2e-50  3.00  Description solute carrier family 25 (mitochondrial carrier, aralar), member 12  C234R039  < 2e-50  3.40  C089R101  < 2e-50  4.80  < 2e-50  4.00  < 2e-50  4.50  < 2e-50  4.50  C049R036  STOM  C184R130 C154R088  SLC25A12  stomatin  solute carrier family 25 (mitochondrial carrier, aralar), member 12  C208R027 C137R142  PABPC4  < 2e-50  4.80  < 2e-50  5.50  poly(a) tein,  binding cytoplasmic  pro4  (inducible form) C053R112  COL28A1  < 2e-50  3.20  collagen alpha-1(xxviii) chain precursor  C091R125  < 2e-50  4.40  C053R019  < 2e-50  4.60  < 2e-50  4.00  C073R166  PDK3  pyruvate dehydrogenase kinase, isoenzyme 3  C003R120  CLIC5  < 2e-50  4.10  chloride  intracellular  channel 5  423  Probe C250R010  Gene Symbol  p-value  log2 FC  NNT  < 2e-50  3.50  Description nicotinamide nucleotide transhydrogenase  C236R013  DES  < 2e-50  4.80  desmin  C057R055  XIRP2  < 2e-50  6.20  xin  actin-binding  repeat-containing protein 2 C199R051  TMEM41AA  < 2e-50  4.20  transmembrane protein 41a precursor  C228R149  < 2e-50  3.00  C264R084  < 2e-50  4.60  C214R057  < 2e-50  6.00  < 2e-50  3.50  C179R098  NNT  nicotinamide nucleotide transhydrogenase  C098R022  ADSSL1  < 2e-50  3.50  adenylosuccinate  syn-  thase like 1 C222R002  PABPC4  < 2e-50  4.30  poly(a) tein,  binding cytoplasmic  pro4  (inducible form) C065R162  SMYD1  < 2e-50  4.40  set and mynd domain containing 1  C145R066  ZGC:92542  < 2e-50  5.00  zgc:92542  C232R003  VPS13C  < 2e-50  3.20  vacuolar protein sorting 13c (yeast)  424  Probe  p-value  log2 FC  C129R111  < 2e-50  3.90  C176R064  < 2e-50  4.60  < 2e-50  3.50  C141R112  Gene Symbol  MPV17L2  Description  uncharacterized protein fksg24 homolog  C127R094  IGSF22  < 2e-50  7.30  immunoglobulin superfamily member 22  C088R091  TNNI2  < 2e-50  5.20  troponin i type 2 (skeletal, fast)  C263R120  < 2e-50  5.40  C162R024  < 2e-50  3.90  < 2e-50  3.80  C056R050  PABPC4  poly(a) tein,  binding  pro-  cytoplasmic  4  (inducible form) C052R166  < 2e-50  3.30  C061R074  < 2e-50  3.70  < 2e-50  4.50  C046R081  TRPM7  transient receptor potential cation channel, subfamily m, member 7  C193R054  TTN|TTN  < 2e-50  4.20  titin|titin  C042R028  ME3  < 2e-50  4.60  malic  enzyme  nadp(+)-dependent, mitochondrial C205R068  < 2e-50  3.20  425  3,  Probe  Gene Symbol  C118R021 C074R154  CHRNE  p-value  log2 FC  < 2e-50  6.20  < 2e-50  3.60  Description  acetylcholine tor  recep-  subunit  epsilon  precursor C085R048  APOO  < 2e-50  3.00  hypothetical  protein  mgc4825 C072R116 C159R129  FLNC  < 2e-50  3.80  < 2e-50  3.10  filamin c, gamma (actin binding protein 280)  C128R024  < 2e-50  4.60  C144R169  < 2e-50  4.60  C197R062  < 2e-50  4.30  C220R124  MYOZ2  < 2e-50  6.90  zgc:77803  C013R158  SMYD1  < 2e-50  4.50  set and mynd domain containing 1  C200R149 C076R024  ANKRD9  < 2e-50  6.10  < 2e-50  5.30  ankyrin repeat domain 9  C073R026  DDIT4L  < 2e-50  3.80  dna-damage-inducible transcript 4-like  C266R127  SMYD1  < 2e-50  4.40  set and mynd domain containing 1  C210R112  < 2e-50  4.20  426  Probe C102R043  Gene Symbol  p-value  log2 FC  Description  MYOZ1  < 2e-50  7.00  myozenin 1  < 2e-50  4.70  < 2e-50  4.80  C185R084 C026R061  NEURL2  neuralized-like  2  (drosophila) C186R055  TMEM41AA  < 2e-50  4.60  transmembrane protein 41a precursor  C248R151  < 2e-50  6.00  C252R114  < 2e-50  3.90  < 2e-50  3.10  C178R026  FLNC  filamin c, gamma (actin binding protein 280)  C089R152  PPP1R3D  < 2e-50  5.20  protein phosphatase 1, regulatory subunit 3d  C248R080 C175R023  RBFOX1L  < 2e-50  4.20  < 2e-50  6.00  fox-1 homolog-like protein 1  C193R142  PHKG1  < 2e-50  4.90  phosphorylase  kinase,  gamma 1 (muscle) C131R006 C062R056  RBFOX1L  < 2e-50  6.80  < 2e-50  6.40  fox-1 homolog-like protein 1  C025R036  ZGC:158664  < 2e-50  4.70  ptrf/sdpr family protein  C199R008  SRL  < 2e-50  4.30  im:6899248  427  Probe C151R033  Gene Symbol  p-value  log2 FC  DHRS7B  < 2e-50  3.10  Description dehydrogenase/reductase sdr family member 7b  C164R029  SRL  < 2e-50  6.70  im:6899248  C011R159  SRL  < 2e-50  6.60  im:6899248  C256R034  LDB3  < 2e-50  6.70  lim domain binding 3  < 2e-50  5.80  C151R012 C087R088  TMOD3  < 2e-50  5.00  tropomodulin-3  C091R016  APOBEC2  < 2e-50  3.60  apolipoprotein b mrna editing  enzyme,  cat-  alytic polypeptide-like 2 C121R032  < 2e-50  3.80  C188R113  < 2e-50  6.90  < 2e-50  6.60  < 2e-50  6.10  C186R059  RTN2  C228R082  reticulon 2  C111R145  RIN3  < 2e-50  3.40  ras and rab interactor 3  C179R074  GMPR  < 2e-50  3.80  guanosine  monophos-  phate reductase C233R062 C245R100  FBP1  < 2e-50  6.20  < 2e-50  5.10  fructose-1,6bisphosphatase 1  C213R117  < 2e-50  3.20  428  Probe C079R057  Gene Symbol  p-value  log2 FC  Kbtbd5  < 2e-50  5.10  Description kelch repeat and btb (poz) domain containing 5  C113R085  PPM1A  < 2e-50  3.90  protein phosphatase 1a, magnesium dependent, alpha isoform  C188R142  < 2e-50  3.30  C178R113  < 2e-50  3.70  C163R092  < 2e-50  3.30  C051R138  < 2e-50  3.50  C109R157  < 2e-50  3.60  < 2e-50  7.70  C258R027  IGSF22  immunoglobulin superfamily member 22  C047R143  EEF2  < 2e-50  5.70  eukaryotic  translation  elongation factor 2 C053R003  < 2e-50  5.20  C177R107  < 2e-50  3.20  C144R149  < 2e-50  4.60  < 2e-50  4.40  C232R124  DHRS7B  dehydrogenase/reductase sdr family member 7b  429  Probe C185R041  Gene Symbol  p-value  log2 FC  MTHFD2  < 2e-50  5.00  Description methylenetetrahydrofolate dehydrogenase  (nad+  dependent), methenyltetrahydrofolate cyclohydrolase C169R060  < 2e-50  5.50  C178R121  SRL  < 2e-50  6.50  im:6899248  C026R018  PPP1CB  < 2e-50  3.90  protein phosphatase 1, catalytic subunit, beta isoform  C014R129 C215R133  LRRC20  < 2e-50  5.50  < 2e-50  3.80  leucine rich repeat containing 20  C122R092  SMYD1  < 2e-50  5.50  set and mynd domain containing 1  C053R050  TTN|TTN  < 2e-50  6.40  titin|titin  C195R170  CACNG1  < 2e-50  4.80  voltage-dependent calcium channel gamma-1 subunit  C197R142  < 2e-50  5.50  C163R095  TXLNB  < 2e-50  5.90  taxilin beta  C246R046  FGF3  < 2e-50  5.50  fibroblast growth factor 3  430  Probe  Gene Symbol  p-value  log2 FC  C192R136  < 2e-50  4.40  C194R144  < 2e-50  4.10  Description  C205R158  TXLNB  < 2e-50  5.60  taxilin beta  C266R146  NOC2L  < 2e-50  4.80  nucleolar complex protein 2 homolog  C256R063  ALDOCB  < 2e-50  7.80  fructose-bisphosphate aldolase c  C194R147  GMPR  < 2e-50  4.60  guanosine  monophos-  phate reductase C011R075  SLC41A1  < 2e-50  4.00  solute carrier family 41 member 1  C087R148 C148R064  KDM4B  < 2e-50  3.50  < 2e-50  4.40  jmjc domain-containing histone  demethylation  protein 3b C090R043  ZMYND17  < 2e-50  4.20  zinc finger, mynd-type containing 17  C144R158  TECR  < 2e-50  5.70  synaptic  glycoprotein  sc2 C237R114  ETNK1  < 2e-50  4.60  ethanolamine kinase 1  C043R143  FLII  < 2e-50  8.30  flightless  i  homolog  (drosophila) C133R016  MYH3  < 2e-50  4.90  myosin-3  431  Probe  Gene Symbol  C138R033 C249R024  LDB3  C252R090 C198R091  HSP90A.1  p-value  log2 FC  < 2e-50  5.80  < 2e-50  6.70  < 2e-50  3.90  < 2e-50  6.70  Description  lim domain binding 3  heat shock protein 90alpha  C104R120 C244R004  DDIT4L  < 2e-50  3.50  < 2e-50  3.70  dna-damage-inducible transcript 4-like  C104R151 C143R143  RPS2  C136R087 C080R019  EIF4E2  < 2e-50  3.40  < 2e-50  7.20  < 2e-50  4.10  < 2e-50  3.10  ribosomal protein s2  eukaryotic  translation  initiation  factor  4e  member 2 C248R132  KLHL31  < 2e-50  5.70  riken cdna d930047p17 gene  C058R124 C224R038  SH3BGR  < 2e-50  5.90  < 2e-50  3.80  sh3-binding glutamic  domain acid-rich  protein C265R092  RTN2  < 2e-50  6.30  reticulon 2  C108R019  SLC38A3  < 2e-50  4.70  solute carrier family 38, member 3  432  Probe  Gene Symbol  C231R157 C244R091  PHKB  p-value  log2 FC  < 2e-50  3.30  < 2e-50  3.00  Description  phosphorylase  kinase,  beta C104R095 C063R010  PYGM  < 2e-50  7.10  < 2e-50  7.00  phosphorylase, gen;  glyco-  muscle (mcardle  syndrome,  glycogen  storage disease type v) C059R084  TMEM182  < 2e-50  3.70  hypothetical  protein  flj30294 C051R050 C023R004  HSPB11  < 2e-50  3.20  < 2e-50  4.10  heat shock protein beta11  C090R011  STAC3  < 2e-50  3.50  sh3 and cysteine-rich domain-containing protein 3  C106R056  TRDN  < 2e-50  4.10  triadin  C163R131  MYOG  < 2e-50  3.80  myogenin  C181R087  < 2e-50  3.90  C029R016  < 2e-50  4.90  < 2e-50  3.70  C112R052  < 2e-50  4.00  C004R141  < 2e-50  5.90  C041R004  TRDN  triadin  433  Probe C131R116  Gene Symbol  p-value  log2 FC  PHKB  < 2e-50  3.10  Description phosphorylase  kinase,  beta C020R165  PACSIN3  < 2e-50  3.90  protein kinase c and casein kinase ii substrate protein 3  C040R081 C196R165  MLF1  < 2e-50  4.50  < 2e-50  4.50  similar  to  myeloid  leukemia factor 1 C182R095 C186R102  CTCF  < 2e-50  4.70  < 2e-50  4.50  ccctc-binding  factor  (zinc finger protein) C155R156  < 2e-50  4.40  C181R067  < 2e-50  4.50  C135R160  < 2e-50  3.90  < 2e-50  6.20  C076R020  MAP1LC3A  microtubule-associated protein 1 light chain 3 alpha  C069R003  < 2e-50  4.60  C189R120  < 2e-50  6.00  < 2e-50  3.10  < 2e-50  4.90  C090R081 C213R110  CRYAB  alpha-crystallin b chain  434  Probe C257R160  Gene Symbol  p-value  log2 FC  PYGM  < 2e-50  6.20  Description phosphorylase, gen;  glyco-  muscle (mcardle  syndrome,  glycogen  storage disease type v) C030R001 C051R121  UGP2  < 2e-50  3.20  < 2e-50  3.30  udp-glucose pyrophosphorylase 2  C046R130 C223R081  GATM  < 2e-50  4.20  < 2e-50  6.90  glycine  amidino-  transferase  (l-  arginine:glycine amidinotransferase) C059R005  TMEM38A  < 2e-50  6.30  zgc:77831  C114R013  TXLNB  < 2e-50  4.70  taxilin beta  C217R001  < 2e-50  5.50  C088R112  < 2e-50  3.80  < 2e-50  3.20  C207R082  EIF4A1  eukaryotic initiation  translation factor  isoform 1 C153R033 C123R106  MCOLN2  < 2e-50  3.40  < 2e-50  4.90  mucolipin-2  435  4a,  Probe C135R128  Gene Symbol  p-value  log2 FC  SLCO1B3  < 2e-50  4.10  Description solute carrier organic anion transporter family member 1b3  C225R142  ARSA  < 2e-50  3.20  arylsulfatase a  C077R090  GYG1  < 2e-50  3.20  glycogenin 1  C007R038  TTN|TTN  < 2e-50  5.30  titin|titin  < 2e-50  4.80  < 2e-50  4.20  C104R068 C207R001  EHBP1L1  eh domain binding protein 1-like 1  C119R116  CSPG5  < 2e-50  3.50  chondroitin sulfate proteoglycan 5  C087R093  SMTNL2  < 2e-50  3.50  riken cdna d130058i21 gene  C121R162  ITGB1BP3  < 2e-50  5.30  integrin beta 1 binding protein 3  C013R148  < 2e-50  3.90  C216R131  TRDN  < 2e-50  3.50  triadin  C173R167  WDR82  < 2e-50  4.80  zgc:55453  C028R170  < 2e-50  3.70  C178R033  < 2e-50  3.30  < 2e-50  6.50  C023R160  PGAM2  phosphoglycerate tase 2 (muscle)  C161R075  ANXA6  < 2e-50  3.20  annexin a6  436  mu-  Probe C195R072  Gene Symbol  p-value  log2 FC  AGL  < 2e-50  4.60  Description amylo-1,  6-  glucosidase,  4-alpha-  glucanotransferase (glycogen  debranch-  ing enzyme, glycogen storage disease type iii) C088R046  ACOT12  < 2e-50  3.50  acyl-coenzyme  a  thioesterase 12 C217R011 C096R096  ITGB1BP3  < 2e-50  3.30  < 2e-50  5.20  integrin beta 1 binding protein 3  C121R115  < 2e-50  3.10  C116R006  < 2e-50  3.30  < 2e-50  3.90  C258R079  AGL  amylo-1, glucosidase,  64-alpha-  glucanotransferase (glycogen  debranch-  ing enzyme, glycogen storage disease type iii) C091R019  KLHL31  < 2e-50  6.30  riken cdna d930047p17 gene  C255R102  < 2e-50  5.10  C221R082  < 2e-50  3.20  437  Probe C159R152  Gene Symbol  p-value  log2 FC  PKM2  < 2e-50  4.30  Description cytosolic  thyroid  hormone binding protein/pyruvate  kinase  type m2 C081R165 C212R115  HSP90A.1  < 2e-50  3.70  < 2e-50  5.60  heat shock protein 90alpha  C238R069  MYOZ2  < 2e-50  3.20  zgc:77803  C047R007  TCAP  < 2e-50  5.90  titin-cap (telethonin)  < 2e-50  4.10  < 2e-50  3.60  C027R031 C121R053  KBTBD12  kelch  domain-  containing  protein  6 C076R028  < 2e-50  4.40  C249R116  PVALB2  < 2e-50  5.00  parvalbumin 2  C247R090  ZSWIM5  < 2e-50  3.80  zinc  finger  swim  domain-containing protein 5 C103R102  EPHX1  < 2e-50  4.40  epoxide hydrolase 1, microsomal  C230R037  MAT2A  < 2e-50  5.20  methionine  adenosyl-  transferase ii, alpha  438  Probe C229R038  Gene Symbol  p-value  log2 FC  HSP90A.1  < 2e-50  5.30  Description heat shock protein 90alpha  C084R128  OBSCN  < 2e-50  3.40  hypothetical  protein  flj14124 C228R009  HSP90A.1  < 2e-50  6.10  heat shock protein 90alpha  C182R017 C264R125  ITGB1BP3  < 2e-50  3.50  < 2e-50  4.90  integrin beta 1 binding protein 3  C180R101 C002R123  ASB12  < 2e-50  4.80  < 2e-50  3.40  ankyrin repeat and socs box-containing protein 12  C151R165  GAPDH  < 2e-50  6.30  glyceraldehyde-3phosphate  dehydroge-  nase C147R067  < 2e-50  4.60  C014R034  TTN|TTN  < 2e-50  4.10  titin|titin  C151R127  PVALB2  < 2e-50  5.10  parvalbumin 2  C189R129  ASNSD1  < 2e-50  3.70  asparagine  synthetase  domain containing 1 C015R007  IMPA1  < 2e-50  3.30  inositol  monophos-  phatase  439  Probe C213R092  Gene Symbol  p-value  log2 FC  TTN|TTN  < 2e-50  5.50  < 2e-50  3.10  < 2e-50  3.30  < 2e-50  3.60  < 2e-50  3.50  C142R030 C150R089  SRPK1  C023R133 C254R055  XIRP1  Description titin|titin  sfrs protein kinase 1  xin  actin-binding  repeat-containing protein 1 C011R035  APOB  < 2e-50  3.90  apolipoprotein b (including ag(x) antigen)  C065R057  SDR16C5  < 2e-50  4.10  epidermal retinal dehydrogenase 2  C171R151 C250R047  SLC43A3|SLC43A3  < 2e-50  3.40  < 2e-50  3.60  solute carrier family 43, member 3|solute carrier family 43, member 3  C133R087  < 2e-50  4.50  C005R133  < 2e-50  3.40  C187R140  < 2e-50  4.30  C200R154  < 2e-50  4.20  < 2e-50  4.60  C021R155  CAV3  SMTNL2  caveolin 3  riken cdna d130058i21 gene  C049R101  OTX1  < 2e-50  4.20  orthodenticle homolog 1  440  Probe C211R141  Gene Symbol  p-value  log2 FC  GYS1  < 2e-50  3.60  Description glycogen  synthase  1  (muscle) C207R014 C247R014  SMYD2  < 2e-50  3.50  < 2e-50  3.60  set and mynd domain containing 2  C243R129 C037R060  TRIM63  < 2e-50  3.20  < 2e-50  5.70  tripartite  motif-  containing 63 C254R155  < 2e-50  4.10  C236R001  TTN|TTN  < 2e-50  4.00  titin|titin  C135R153  SAMM50  < 2e-50  3.60  sorting and assembly machinery  compo-  nent 50 homolog (s. cerevisiae) C212R021  < 2e-50  5.40  C205R164  < 2e-50  4.00  C080R122  < 2e-50  3.40  < 2e-50  4.70  C150R033  TTN|TTN  ANKRD9  titin|titin  ankyrin repeat domain 9  C195R121 C211R056  CKM|CKM  < 2e-50  3.50  < 2e-50  3.10  creatine  kinase,  muscle|creatine nase, muscle  441  ki-  Probe C187R108  Gene Symbol  p-value  log2 FC  GRIN3B  < 2e-50  3.30  Description glutamate [nmda] receptor subunit 3b precursor  C238R023 C133R099  MYT1L  < 2e-50  4.20  < 2e-50  4.20  myelin  transcription  factor 1-like protein C154R119  ACOT12  < 2e-50  3.40  acyl-coenzyme  a  thioesterase 12 C131R053  < 2e-50  6.50  C169R047  < 2e-50  3.50  < 2e-50  3.70  C068R012  DQX1  atp-dependent rna helicase dqx1  C113R107  PFKM  < 2e-50  4.60  phosphofructokinase, muscle  C250R084  < 2e-50  4.20  C063R052  < 2e-50  4.00  C022R003  < 2e-50  6.00  C102R132  < 2e-50  6.60  < 2e-50  3.70  C198R038  ABCF2  atp-binding  cassette,  sub-family f (gcn20), member 2 C239R167  < 2e-50  3.20  442  Probe C017R131  Gene Symbol  p-value  log2 FC  PKM2  < 2e-50  4.00  Description cytosolic  thyroid  hormone binding protein/pyruvate  kinase  type m2 C265R116  TPI1  < 2e-50  4.10  triosephosphate  iso-  merase 1 C243R005  < 2e-50  4.90  C068R145  < 2e-50  3.80  C258R071  < 2e-50  3.60  < 2e-50  5.40  C034R087  TRIM63  tripartite  motif-  containing 63 C111R137  GMPR  < 2e-50  3.50  guanosine  monophos-  phate reductase C001R070  < 2e-50  4.80  C255R040  LDB3  < 2e-50  5.00  lim domain binding 3  C043R095  XIRP2  < 2e-50  3.10  xin  actin-binding  repeat-containing protein 2 C058R068  TRIM63  < 2e-50  6.60  tripartite  motif-  containing 63 C263R056  NEURL2  < 2e-50  4.20  neuralized-like (drosophila)  C166R099  ACTN3  < 2e-50  4.70  actinin alpha 3  443  2  Probe  Gene Symbol  p-value  log2 FC  C047R111  MYOT  < 2e-50  3.60  myotilin  C084R067  GYPC  < 2e-50  3.20  glycophorin-c  < 2e-50  3.90  < 2e-50  3.90  C005R032 C130R158  ZGC:136906  Description  dual specificity phosphatase dupd1  C190R076  ELMO3  < 2e-50  3.40  engulfment  and  cell  motility 3 C160R061  UNC45B  < 2e-50  4.30  unc-45 homolog b (c. elegans)  C259R055 C206R169  ASB16  < 2e-50  3.10  < 2e-50  4.50  ankyrin repeat and socs box protein 16  C233R074  < 2e-50  3.80  C167R077  < 2e-50  3.30  < 2e-50  4.30  C153R037  ACTC1  actin,  alpha,  cardiac  muscle C054R036  TSC22D3  < 2e-50  3.90  tsc22 domain family 3  C214R023  BTG4-B  < 2e-50  3.90  maternal b9.15 protein  C017R062  MLF1  < 2e-50  3.80  similar  to  myeloid  leukemia factor 1 C256R075  SARDH  < 2e-50  3.80  sarcosine nase,  dehydrogemitochondrial  precursor  444  Probe C026R101  Gene Symbol  p-value  log2 FC  DNAJA4  < 2e-50  4.20  Description dnaj (hsp40) homolog, subfamily a, member 4  C068R134  KLHL31  < 2e-50  3.20  riken cdna d930047p17 gene  C154R164 C012R061  IMPDH2  < 2e-50  3.00  < 2e-50  3.30  similar  to  inosine  5-phosphate dehydrogenase 2 C183R018 C030R046  PTGES3  < 2e-50  3.40  < 2e-50  3.70  prostaglandin  e  syn-  thase 3 (cytosolic) C204R134  6.21e-48  3.20  C181R018  TRDN  2.81e-43  3.10  triadin  C006R104  ACTN2  1.59e-42  3.50  actinin alpha 2  2.65e-40  3.00  C243R086 C182R131  TTN|TTN  4.75e-39  4.80  titin|titin  C126R030  PPP2R3C  3.00e-38  3.30  riken cdna 4930511a21 gene  C102R119  1.74e-35  3.30  C240R141  1.65e-34  3.50  445  Probe  Gene Symbol  p-value  C207R116  CALCOCO1  2.94e-32  log2 FC 3.70  Description calcium-binding  and  coiled-coil  domain-  containing  protein  1 C054R063  1.08e-29  3.00  1.88e-27  3.70  C244R014  2.35e-27  3.20  C041R169  2.97e-27  3.20  2.37e-26  3.20  C224R022  1.72e-24  3.00  C005R105  1.48e-21  3.20  3.29e-21  4.10  C148R166  C042R056  C037R011  MYOT  DTNA  LRRC20  myotilin  dystrobrevin, alpha  leucine rich repeat containing 20  C229R054  ASB5  1.44e-20  3.40  ankyrin repeat and socs box protein 5  C168R011 C109R032  TNNI1  2.26e-17  3.50  1.31e-16  3.80  troponin i, skeletal, slow 1  C063R077  FLNC  3.55e-16  3.70  filamin c, gamma (actin binding protein 280)  C164R102 C001R058  ANXA6  5.45e-14  3.50  1.02e-13  3.60  annexin a6  446  Probe C069R063  Gene Symbol  p-value  DUSP26  1.19e-12  log2 FC 3.80  Description dual specificity phosphatase 26 (putative)  C202R086 C266R142  TPI1  3.30e-11  3.30  3.35e-11  3.50  triosephosphate  iso-  merase 1 C041R100 C262R047  TXNDC15  4.51e-11  3.10  1.46e-09  3.30  riken cdna 2310047h23 gene  C143R069  2.11e-08  3.50  C073R167  6.53e-05  3.70  0.000205  3.20  C156R066  SLC7A7  solute  carrier  fam-  ily 7 (cationic amino acid transporter,  y+  system), member 7 C225R084  RASGEF1BA  0.002021  3.60  ras-gef  domain-  containing  family  member 1b  447  Appendix C  Tissue-Specific Functional Enrichment C.1  Brain-Specific Enrichment  Description  ID  Probes Genes Raw  Pval  Score negative  regula-  tion  protein  of  Corrected SameAs Pval  GO:0031397  255  63  0.68  0.00  0.00  GO:0051438  253  63  0.68  0.00  0.00  GO:0051340  257  65  0.67  0.00  0.00  ubiquitination regulation  of  ubiquitin-protein ligase activity regulation of ligase activity  448  Description  ID  Probes Genes Raw  Pval  Score regulation  of  Corrected SameAs Pval  GO:0051439  233  54  0.69  0.00  0.00  GO:0051437  219  49  0.70  0.00  0.00  GO:0051352  220  53  0.69  0.00  0.00  GO:0051444  GO:0051444  220  53  0.69  0.00  0.00  GO:0051352  GO:0051443  230  53  0.69  0.00  0.00  ubiquitin-protein ligase activity involved in mitotic cell cycle positive  regula-  tion of ubiquitinprotein  ligase  activity involved in  mitotic  cell  cycle negative  regu-  lation  ligase  of  activity hline  negative  regulation  of  ubiquitin-protein ligase activity positive  regula-  tion of ubiquitinprotein  ligase  activity  449  Description  ID  Probes Genes Raw  Pval  Score positive lation  reguof  Corrected SameAs Pval  GO:0051351  234  55  0.68  0.00  0.00  GO:0031145  210  47  0.69  0.00  0.00  GO:0051436  212  49  0.68  0.00  0.00  GO:0051258  97  25  0.74  0.00  0.00  GO:0015682  82  19  0.77  0.00  0.00  ligase  activity anaphasepromoting complexdependent proteasomal ubiquitindependent tein  pro-  catabolic  process negative  regula-  tion of ubiquitinprotein  ligase  activity involved in  mitotic  cell  cycle protein polymerization ferric iron trans-  GO:0033572  port  450  Description  ID  Probes Genes Raw  Pval  Score transferrin trans-  GO:0033572  82  19  Corrected SameAs Pval  0.77  0.00  0.00  GO:0015682  Probes Genes Raw  Pval  Corrected SameAs  port  C.2  Gill-Specific Enrichment  Description  ID  Score regulation  of  GO:0061041  62  24  Pval  0.77  0.00  0.00  Probes Genes Raw  Pval  Corrected SameAs  wound healing  C.3  Liver-Specific Enrichment  Description  ID  Score organic  acid  Pval  GO:0016054  246  82  0.67  0.00  0.00  GO:0046395  GO:0046395  246  82  0.67  0.00  0.00  GO:0016054  GO:0046164  137  41  0.73  0.00  0.00  GO:0016052  196  57  0.69  0.00  0.00  catabolic process carboxylic  acid  catabolic process alcohol catabolic process carbohydrate catabolic process 451  Description  ID  Probes Genes Raw  Pval  Score cellular carbohydrate  Corrected SameAs Pval  GO:0044275  160  47  0.71  0.00  0.00  GO:0006006  203  63  0.68  0.00  0.00  GO:0009310  170  54  0.69  0.00  0.00  GO:0046365  125  36  0.72  0.00  0.00  GO:0046364  93  28  0.75  0.00  0.00  GO:0019318  277  90  0.64  0.00  0.00  GO:0006007  113  32  0.73  0.00  0.00  GO:0009063  151  49  0.69  0.00  0.00  GO:0019320  123  35  0.72  0.00  0.00  catabolic  process glucose metabolic process amine  catabolic  process monosaccharide catabolic process monosaccharide biosynthetic process hexose metabolic process glucose catabolic process cellular acid  amino catabolic  process hexose  catabolic  process  452  Description  ID  Probes Genes Raw  Pval  Score dicarboxylic acid  Corrected SameAs Pval  GO:0043648  84  32  0.72  0.00  0.00  GO:0046165  128  46  0.68  0.00  0.00  GO:0019321  35  11  0.84  0.00  0.00  gluconeogenesis  GO:0006094  50  14  0.79  0.00  0.01  cellular  GO:0006575  189  65  0.64  0.00  0.01  Probes Genes Raw  Pval  Corrected SameAs  metabolic process alcohol  biosyn-  thetic process pentose metabolic process  modi-  fied amino acid metabolic process  C.4  Muscle-Specific Enrichment  Description  ID  Score glucose metabolic  Pval  GO:0006006  203  63  0.69  0.00  0.00  GO:0046164  137  41  0.73  0.00  0.00  GO:0019318  277  90  0.65  0.00  0.00  process alcohol catabolic process hexose metabolic process  453  Description  ID  Probes Genes Raw  Pval  Score monosaccharide  Corrected SameAs Pval  GO:0046365  125  36  0.73  0.00  0.00  catabolic  GO:0019320  123  35  0.72  0.00  0.00  cellular carbohy-  GO:0044275  160  47  0.69  0.00  0.00  GO:0006007  113  32  0.72  0.00  0.00  GO:0016052  196  57  0.66  0.00  0.00  GO:0006740  36  10  0.85  0.00  0.00  GO:0019321  35  11  0.83  0.00  0.01  GO:0006413  235  52  0.66  0.00  0.01  catabolic process hexose process  drate  catabolic  process glucose catabolic process carbohydrate catabolic process NADPH regeneration pentose metabolic process translational initiation  454  Appendix D  Pathogen-Specific Functional Enrichment D.1  Microsporidia-Specific Enrichment  No significant enrichment.  D.2  Gill Chlamydia-Specific Enrichment  Description  ID  Probes Genes Raw  Pval  Score positive  regula-  GO:0051437  219  49  0.77  Corrected SameAs Pval  0.00  0.00  tion of ubiquitinprotein  ligase  activity involved in  mitotic  cell  cycle  455  Description  ID  Probes Genes Raw  Pval  Score anaphase-  Corrected SameAs Pval  GO:0031145  210  47  0.78  0.00  0.00  GO:0051443  230  53  0.76  0.00  0.00  GO:0051439  233  54  0.75  0.00  0.00  GO:0051351  234  55  0.75  0.00  0.00  promoting complexdependent proteasomal ubiquitindependent tein  pro-  catabolic  process positive  regula-  tion of ubiquitinprotein  ligase  activity regulation  of  ubiquitin-protein ligase activity involved in mitotic cell cycle positive lation  reguof  ligase  activity  456  Description  ID  Probes Genes Raw  Pval  Score negative  regula-  Corrected SameAs Pval  GO:0051436  212  49  0.75  0.00  0.00  GO:0031398  293  78  0.70  0.00  0.00  GO:0051438  253  63  0.71  0.00  0.00  GO:0051352  220  53  0.73  0.00  0.00  GO:0051444  GO:0051444  220  53  0.73  0.00  0.00  GO:0051352  GO:0051340  257  65  0.70  0.00  0.00  tion of ubiquitinprotein  ligase  activity involved in  mitotic  cell  cycle positive  regula-  tion  protein  of  ubiquitination regulation  of  ubiquitin-protein ligase activity negative  regu-  lation  ligase  of  activity negative  regula-  tion of ubiquitinprotein  ligase  activity regulation of ligase activity  457  Description  ID  Probes Genes Raw  Pval  Score negative  regula-  tion  protein  of  Corrected SameAs Pval  GO:0031397  255  63  0.70  0.00  0.00  GO:0006413  235  52  0.71  0.00  0.00  ubiquitination translational initiation  D.3  Parvovirus-Specific Enrichment  No significant enrichment.  458  

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