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Empiric risk estimation in Alzheimer disease 1989

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EMPIRIC RISK ESTIMATION IN ALZHEIMER DISEASE By MARK EDWARD IRWIN B.Sc, The University of British Columbia, 1986 A THESIS SUBMITTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF MASTER OF SCIENCE in THE FACULTY OF GRADUATE STUDIES (Department of Statistics) We accept this thesis as conforming to the required standard THE UNIVERSITY OF BRITISH COLUMBIA September 1989 © Mark Edward Irwin, 1989 In presenting this thesis in partial fulfilment of the requirements for an advanced degree at the University of British Columbia, I agree that the Library shall make it freely available for reference and study. I further agree that permission for extensive copying of this thesis for scholarly purposes may be granted by the head of my department or by his or her representatives. It is understood that copying or publication of this thesis for financial gain shall not be allowed without my written permission. Department of Statistics The University of British Columbia Vancouver, Canada DE-6 (2/88) ABSTRACT Alzheimer disease is believed to be the most common cause of dementia. The main cause is presently unknown, with genetic and environmental factors suggested. It appears that 10-15% of Alzheimer disease is due to an autosomal dominant gene and it has been hypothesized that this is the cause for all Alzheimer's. Alzheimer's variable age of onset makes it more difficult to determine the validity of this and other genetic models. Empiric risk estimates for Alzheimer disease in relatives can used to test the plausibility of various genetic models. Three types of procedures for estimating the risk of Alzheimer disease are discussed. Three nonparametric, product-limit type estimators (Kaplan-Meier, Life-table, Weinberg) for age-specific risks are discussed first. Then three estimators for lifetime risk of disease using a predetermined weight function believed to approximate the true age of onset distribution (Stromgren, Modified Stromgren, maximum likelihood) are compared. Finally a maximum likelihood procedure to estimate lifetime risk and the age of onset distribution is presented. The properties of these estimators are discussed using a data set from the Alzheimer Clinic, University Hospital - U.B.C. Site. In addition, the results of a Monte-Carlo study of the maximum likelihood procedure for estimating the lifetime risk and age of onset distribution are discussed. The most useful of these estimators appear to be the Kaplan-Meier and the life-table estimators for age-specific risks and the maximum likelihood procedure for estimating lifetime risk and the age of onset distribution. The Weinberg estimator appears to be biased and the fixed age of onset estimators for lifetime risk appear to be too dependent on the choice of the age of onset distribution to be useful in general. ii TABLE OF CONTENTS Abstract ii List of Tables v List of Figures vii Acknowledgement ix 1 Introduction 1 1.1 Background 1 1.2 Data Sets Investigated 2 1.3 Thesis Structure 5 2 Product-Limit Estimation of Age-Specific Risks 9 2.1 Background 9 2.2 Model and Estimators 9 2.3 Properties of Estimators 13 2.4 Results 14 3 Lifetime Risk Estimation Using Fixed Age of Onset Distributions 26 3.1 Background 26 3.2 Model and Estimators 26 3.3 Results 31 4 Lifetime Risk and Age of Onset Distribution Estimation 39 4.1 Background 39 4.2 Model and Estimation 39 4.3 Age of Onset Distributions 43 4.4 Results 46 5 Simulation Study 61 5.1 Background 61 5.2 Simulation Conditions 61 5.3 Results 63 iii 6 Conclusions 80 6.1 Risks for Alzheimer's and Their Implications 80 6.2 Comparison of the Estimation Methods 80 7 Bibliography 82 iv LIST OF TABLES 1.1 Diagnosis of Clinic Patients After Evaluation 3 2.1 Age-Specific Risks Under Stringent without FAD Criteria 15 2.2 Age-Specific Risks Under Stringent with FAD Criteria 17 2.3 Age-Specific Risks Under Relaxed Criteria 19 2.4 Age-Specific Risks Under FAD Only Criteria 21 2.5 Risk of Dementia at Age 90 with Standard Errors 23 3.1 Weight Functions Used 32 3.2 Lifetime Risk Under Stringent without FAD Criteria 36 3.3 Lifetime Risk Under Stringent with FAD Criteria 36 3.4 Lifetime Risk Under Relaxed Criteria 37 3.5 Lifetime Risk Under FAD Only Criteria 37 3.6 Lifetime Risk for Winokur Data Set 38 4.1 Parameter Estimates Under Stringent without FAD Criteria 49 4.2 Parameter Estimates Under Stringent with FAD Criteria 50 4.3 Parameter Estimates Under Relaxed Criteria 51 4.4 Parameter Estimates Under FAD Only Criteria 52 4.5 Parameter Estimates For Winokur Data Set 53 5.1 Parameters of the Simulation Study 62 5.2 Average of Estimates for p (Generated by Logistic) 68 5.3 Average of Estimates for p (Generated by Normal) 69 5.4 Average of Estimates for p (Generated by Gamma) 70 5.5 Average of Estimates for p (Generated by Lognormal) 71 5.6 Average of Estimates for Mean Age of Onset (Generated by Logistic) 72 5.7 Average of Estimates for Mean Age of Onset (Generated by Normal) 73 5.8 Average of Estimates for Mean Age of Onset (Generated by Gamma) 74 5.9 Average of Estimates for Mean Age of Onset (Generated by Lognormal) 75 v 5.10 Average of Estimates for Standard Deviation (Generated by Logistic) 76 5.11 Average of Estimates for Standard Deviation (Generated by Normal) 77 5.12 Average of Estimates for Standard Deviation (Generated by Gamma) 78 5.13 Average of Estimates for Standard Deviation (Generated by Lognormal) 79 vi LIST OF FIGURES 1.1 Sample FAD Family 7 1.2 Pedigree Symbols 8 2.1 Age-Specific Risks Under Stringent without FAD Criteria 24 2.2 Age-Specific Risks Under Stringent with FAD Criteria 24 2.3 Age-Specific Risks Under Relaxed Criteria 25 2.4 Age-Specific Risks Under FAD Only Criteria 25 3.1 Alzheimer Weight Functions 33 3.2 Winokur Weight Functions 33 4.1 Probability of Being Affected Under Stringent without FAD Criteria 54 4.2 Probability of Being Affected Under Stringent with FAD Criteria (MM Family Included) 55 4.3 Probability of Being Affected Under Stringent with FAD Criteria (MM Family Excluded) 55 4.4 Probability of Being Affected Under Relaxed Criteria (MM Family Included) 56 4.5 Probability of Being Affected Under Relaxed Criteria (MM Family Excluded) 56 4.6 Probability of Being Affected Under FAD Only Criteria (MM Family Included) 57 4.7 Probability of Being Affected Under FAD Only Criteria (MM Family Excluded) 57 4.8 Probability of Being Affected Under Stringent without FAD Criteria with Life-Table Estimate 58 4.9 Probability of Being Affected Under Relaxed Criteria (Effect of MM Family with Normal Age of Onset) 58 , vii j 4.10 Probability of Being Affected Under Relaxed Criteria (Effect of MM Family with Gamma Age of Onset) 4.11 Probability of Being Affected For Winokur Data Set viii ACKNOWLEDGEMENTS I would like to thank Mrs. Jean Turnbull for her help in locating the difficult to find references, Dr. Nancy Heckman for her careful reading of this thesis, and Dr. Patricia Baird for her advice and encouragement. In particular I would also like to thank Dr. John Petkau for supervising my thesis project for the past one and a half years. Finally, I would like to thank Dr. Dessa Sadovnick allowing me to use the Alzheimer data discussed in this thesis and for her advice and encouragement during the three years I worked with her. ix 1 INTRODUCTION 1.1 Background Alzheimer disease (AD) is a condition clinically characterized by dementia (organic loss of cognitive function) and is often accompanied by major personality changes. It is believed to be the most common cause of dementia, accounting for 50-65% of all patients with this diagnosis (Katzman, 1976; Marsden, 1978). A D has a variable age of onset, ranging from ages 35 to 90, with the majority of people becoming affected in their 70's. The main cause of A D is presently unknown, with genetic and environmental factors hypothesized. It is believed that 10-15% of cases represent Familial Alzheimer disease (FAD), a genetic form of the disease (Friedland, 1988). These families exhibit autosomal dominant inheritance, with each child of an affected person having a 50% risk of inheriting the gene causing the disease and becoming affected themselves assuming they life long enough to reach their age of onset. A pedigree of one family appearing to represent F A D is shown in Figure 1.1 (Sadovnick et al., 1988). An explanation of the pedigree symbols is in Figure 1.2. This family is atypical, having an extremely low age of onset. It should be noted that having multiple affected members in a family does not imply that the family represents the genetic form of the disease, a "sporadic" or non-genetic form of the disease could also account for this situation. The F A D and "sporadic" forms of the disease cannot be differentiated with respect to clinical, pathological, and biochemical factors. In a few families with early onset of dementia, D N A markers have been mapped to chromosome 21 (St. George-Hyslop et al., 1987; Marx, 1988). Genetic heterogeneity in A D has been suggested by the failure of some groups to show linkage to chromosome 21 in FAD pedigrees (Schellenberg et al, 1988; Pericak-Vance et al. 1988). It has been speculated that there is no "sporadic" form of the disease, with these cases representing age-reduced penetrance of an autosomal dominant gene (Editorial, 1986). Recent studies have suggested that the rates of A D are consistent with an autosomal dominant trait with complete penetrance by some very late age. Breitner and Folstein 1 (1984), Breitner et al. (1988), Martin et al. (1988), and Zubenko et al. (1988) have found risks for AD in first degree relatives approaching 50% by approximately age 90. These findings have not been consistently found, with Sadovnick et al. (1989) and Farrer et al. (1989) reporting much lower risks. The purpose of this thesis is to investigate methods for calculating empirical risks for dementia in first-degree relatives (parents and siblings) of people with AD. These risk estimates serve two purposes. Firstly, they are useful for counselling, allowing people make better informed decisions about careers or whether to have children, for example. If someone knows that they have a 50% risk of having Alzheimer's by age 40, as in the M M family of Figure 1.1, they may decide to live their life differendy than if they have risks of 10% by age 75 and 25% by age 90. Secondly, the risk estimates can be used to test the plausibility of various disease models, in particular genetic models. Of course, obtaining risk estimates consistent with an hypothesized model does not prove that the model is correct; it only provides supporting evidence. 1.2 Data Sets Investigated The first data set investigated was collected at the Alzheimer Clinic, University Hospital - U.B.C. Site. The Clinic's multidisciplinary team consists of an internist/geriatrician, a psychiatrist, a neuropsychologist, a social worker, a geneticist, and a clinical fellow in Neurology. Al l patients are assessed by all members of the clinic team and are given a diagnosis according to NINCDS-ADRDA standards (McKhann et al., 1984). Risks will be calculated for relatives of patients with probable or definite AD. For a diagnosis of probable AD, dementia must be established by clinical and neuropsychological examination. There must be evidence of deficits in two or more areas of cognition, progressive worsening of memory and other cognitive functions. Also there should be no disturbance of consciousness, and no systemic disorders or other brain diseases that could account for the deficits. If in addition to the typical clinical findings, histopathological evidence from either a biopsy or autopsy consistent with AD is obtained, a definite, or autopsy 2 confirmed, diagnosis can be given. The pathological "hallmarks" of AD include neurofibrillary tangles, amyloid plaques, congophillic angiopathy and granulovascular change. Longitudinal studies of patients with a diagnosis of probable AD have shown that over 85% of cases have neuropathological findings consistent with definite AD (Joachim et al., 1988; Tierney et al., 1988). The diagnoses for the patients seen from January, 1985 to August 1988, the study period, are shown in Table 1.1. Table 1.1: Diagnosis of Clinic Patients After Evaluation Clinic Diagnosis Number Percentage of Total Demented, Alzheimer's Unlikely 27 6.1 Demented, Possible Alzheimer's 90 20.2 Demented, Probable Alzheimer's 141 31.6 Definite Alzheimer's 10 2.2 Not Demented 108 24.2 Diagnosis Pending* 70 15.7 Total 446 100.0 This category consists of patients requiring future follow-up prior to assigning a diagnosis as well as those still in the process of the assessment. All patients referred to the clinic have, as part of their overall assessment, a detailed family history taken by a geneticist. The family history method relies on knowledgeable informants to provide the information on the relatives of the clinic patient. While the family history method has been shown to slightly underestimate the number of affected relatives when compared to the family study method in which all family members are directly assessed, the errors can be reduced by the use of multiple informants. Whenever possible, multiple informants are used, and to date over half of the families have had at least two informants. The preferred co-informants are spouses and siblings rather than the children of the clinic patients as the former tend to be more informative about older relatives. To increase the 3 accuracy of the medical information on the relatives, medical/autopsy records are obtained where possible. These records are evaluated by the appropriate members of the clinic team. This method of collecting data avoids many of the biases inherent in studies in which families are ascertained through genetics clinics and solicitation of volunteers, two methods which tend to result in the over-representation of familial cases. Incorporating genetic evaluation into a specialized medical clinic has been done successfully in the past for Multiple Sclerosis, another adult-onset disease in which genetic factors appear important in the disease's etiology, but where the genetic mechanism is not clear (Sadovnick and Baird, 1988). As only some AD may be due to a genetic trait, it is felt that for research purposes, strong criteria are needed for FAD. Of course this should be relaxed for counselling purposes as it is recognized that the following criteria only identify a very restricted group as FAD. In this study, families must satisfy four conditions to be considered as FAD as described in Sadovnick et al. (1989). 1) A detailed family history must be available must be available for at least the index case's (patient's) generation and the previous (parental) generation; 2) Good clinical documentation of dementia in relatives, preferably from at least two separate sibships within the family must be available; and there must be no other plausible explanation for the dementia such as strokes, alcoholism, head injury, etc.; 3) Neuropathological documentation of Alzheimer disease must be available for at least one member of the family, but preferably for two or more; 4) Accurate information on ages of death and/or present ages of relatives must be available so that it is possible to assess the "significance" of being clinically unaffected. For analysis there are 825 parents and siblings of 151 consecutive, unrelated patients with probable or definite AD. Four criteria were used to determine what families would be 4 included in the analysis and which relatives would be classified as affected. The first three categories were used by Sadovnick et al. (1989) a) Stringent without F A D : In this group, relatives were coded as "affected" only if good clinical and/or autopsy records could be obtained and Alzheimer disease seemed the almost certain diagnosis; FAD families were excluded since their inclusion could confound the results if autosomal dominant inheritance does not account for all Alzheimer disease. b) Stringent with F A D : The criteria as described in (a), but FAD families are included. If all Alzheimer disease is in reality due to autosomal dominant genes, such families should be included in the analysis. c) Relaxed: This includes all cases in category (b), as well as those relatives for whom the only documentation of dementia is based on the descriptions by family informants, but the descriptions do suggest dementia of unknown etiology. In particular, other causes such as strokes and cardiovascular problems have been eliminated. d) F A D Only: Only members of families which have been classified as FAD according to the above rules are included in the data set. Relatives are considered affected under the stringent criteria used in (a) and (b). A second data set involving a group of manic patients admitted to Renard Hospital, the psychiatric section of the Washington University School of Medicine, in St. Louis, between July, 1964 and June, 1965, and between January and May, 1967. The data set is described by Winokur et al. (1969). Risks for an affective disorder (mania, depression, and manic depression) will be calculated for 143 siblings of 54 manic patients. This data set is included to illustrate the properties of some of the analytic techniques. 1.3 Overview of Thesis Three methods of estimating risks will be proposed and discussed. In Chapter 2, product-limit estimates for the probability of being affected by any given age are proposed. These are based on the non-parametric methods of survival analysis for estimating a 5 distribution function in the presence of censored observations. Three parametric procedures for estimating the lifetime risk for disease using a fixed predetermined approximation to the true age of onset distribution are discussed in Chapter 3. The first two are extensions of the sample proportion to estimate a binomial proportion and the third is a maximum likelihood procedure. An extension of this maximum likelihood procedure allowing the estimation of lifetime risk and the age of onset distribution is discussed in Chapter 4. This procedure also can be used to generate age-specific risk estimates similar to those calculated by the product-limit method. The results of a Monte-Carlo study investigating the properties of the extended maximum likelihood procedure are discussed in Chapter 5. In Chapter 6, the different estimation procedures are compared, and the implications the Alzheimer risk estimates have for the model that all AD is due an autosomal dominant trait are discussed. 6 7 Figure 1.2: Pedigree Symbols o 0 Male Female n people of unknown sex Identical Twins Fraternal Twins EDO Probable Alzheimer's Definite Alzheimer's Father 0 Mother Spouse Son 0 Sister Brother D 0 0 Daughter Relationships to Index Case Deceased age identification number Index Case (Proband) 8 2 Product-Limit Estimation of Age-Specific Risks 2.1 Background A number of groups have used product-limit type estimators to calculate age-specific risks for Alzheimer disease (Chase et al, 1983, Breitner et al, 1988, Sadovnick et al, 1989, Huff et al, 1988) and for psychiatric conditions (Slater and Cowie, 1971, Thompson and Weissman, 1981). This method has the advantage that few assumptions about the age of onset distribution need to be made. The one disadvantage of this method is that the lifetime risk cannot be estimated without making assumptions about an upper bound on the age of onset. For these nonparametric methods to be useful, complete information about ages of family members, in particular, ages of onset for affected relatives is needed. Inaccurate determination of age of onset has been shown to lead to inconsistencies in estimation (Breitner and Magruder-Habib, 1989). Problems can also occur if the criteria used for classification as affected don't match the criteria for age of onset. Also if an affected relative's age of onset is unknown, it is not clear how this person should be dealt with. One possible solution is to consider the person unaffected at the highest age where this is clearly the case. 2.2 Model and Estimators Assume that the probability of being affected at any given age is the same for all relatives in the sample and the outcome for each is independent of the others. Then divide the time axis into k+1 intervals Ij = [aj.̂ aj), j = l,...,k+l where T is the largest age observed and 0 = a 0  < aj < ... < a k  = T < a k+1  = <». For a randomly chosen relative in the sample let: Pj P[does not become affected in interval L I unaffected at age aj.j] PI Pi = P [unaffected at age aj, with P 0  = 1 i=i  J ( 1 ) 1 - Pj = P[affected by age aj]. (2) 9 Then collect the data into the form: dj = number of people with onset in interval Ij Wj = number of people withdrawn due to censoring in interval Ij Nj = number of people reaching age a^. The product-limit estimates are based on choosing estimators for pj. Three estimators which have been proposed are: Nj -^Wj + djj-dj Pj = Weinberg Nj--(wj + dj) T T  N J - l W J - d j Pj = — Life-Table N J - 2 W J KM Nj -d; K M  = _ j j Kaplan-Meier (1958). Nj These estimates lead to the age-specific escape probability estimates, P^, P^ T  and Pj 0 ^, which are calculated by substituting the appropriate estimate for pj into equation (1). Then the age-specific risk estimates, R^, R̂ 7  and R ™ , are calculated by using the appropriate estimate for Pj in equation (2). These three different estimators result from different assumptions about the censoring and onset patterns in each age interval. The Weinberg estimate is based on the assumption that onsets and withdrawals occur uniformly within each interval. The actuarial life-table method assumes only withdrawals occur uniformly within an age interval, with no assumptions made about where in the interval the onsets occur. The Kaplan-Meier procedure makes the assumption that all withdrawals occur after all onsets within each age interval. 10 w w An estimate for the variance of Pj and Rj (Slater and Cowie, 1971) is: 2 j 1 W 2 J  1 "Pi v„[pf]-v„[Rn-(pr) s i=i (Ni -^Wi + di)) Pl W .2 J = (PD I di i=i - ̂ wj + di)) (Ni - i ( W i  + di) - di LT LT The estimate for the variance of Pj and Rj as shown by Greenwood (1926) is: w  (Ni-^wijp^ 2 J * ( N i - ^ i j j N i - l w i - d i ) ' The similar estimate for the variance of P ™ and Rj™ as shown by Kaplan and Meier (1958) is: i=l NiPj 2 j  di =  (pKM) j S N i ( N i - d i ) - These variance estimates can be used to calculate confidence intervals of the escape and risk probabilities at any given age. One possible choice (Lawless, 1982) for an approximate 100 (1 - a)% confidence interval for Pj using the asymptotic normality of the above estimates is: P* ± za/ 2  V Var[P* where Pj is one of three discussed estimates and za/2 is the 1 - a/2 quantile of the normal distribution. Another option (Lawless, 1982) is to apply a transform \y so that the 11 distribution of \)/(Pj) is closer to a normal than the distribution of Pj. One good choice for y (Anscombe, 1964) is: V ( P ) = [ r^U-t^dr Jo Another choice which is almost as good (Lawless, 1982) is the logistic transform The variance of \|/(Pj) can be estimated using the delta method by: 4 = MP*)fvar[P;]. If \|/ L  and \|/TJ are defined as: V L = V ( P * ) - Z a / 2 S ^ , \|/u = \|/(p*) + Z a / 2 S ~ , then a 100 (1 - a)% confidence interval for Pj is (\|/ _1 (VL) »¥ _ 1 (Vu)) where XJT 1  is the inverse function of \|/. Confidence intervals for the age-specific risks can be derived using the relationship between Pj and Rj. 2.3 Properties of Estimators The three estimators proposed in section 2.2 satisfy the following orderings: w . LT . KM i) Pj ^Pj ̂ Pj ii) P f S l f s p f " iii) Rj W  > R^ T  ;> Rj 0 4 The relationship between the estimators of Pj can easily be seen by examining LT w , KM LT Pj -pj andpj -pj . LT W 2~ Pi "Pi =1 2,2 LT 2~J > Q P j  (Nj-^Wj-djlNj-^Wj-rdj))" 12 . K M LT W'i Pj "Pj =- N _ P K M ^ ^ P j (Nj-dj j fNj-iwj)" The relationships between the estimators Pj and Rj are then obvious corollaries. In any interval Ij, Pj = Pj if either Wj = 0 or dj = 0. This implies the well known property that if all the withdrawals occur in intervals after all the onsets, the life-table and the Kaplan-Meier estimates will be the same. A small simulation study by Chase et al. (1983) suggested that the Kaplan-Meier estimator is approximately unbiased. This is not surprising as Kaplan and Meier (1958) showed that P ™ is a consistent estimator (and therefore so is R ™ ) when some reasonable assumptions are made. Chase et al. also stated that the life-table estimator appears to be approximately unbiased. This statement is mildly surprising since it is known that this estimator is not consistent (Lawless, 1982). Finally, Chase et al indicated that the Weinberg risk estimator appears to have a positive bias. This is to be expected due to the above ordering of the estimators. The size of the bias does not appear large in their trials, however they do not give any indication as to the size of the bias in general. 2.4 Results All three estimation procedures were used to calculate age-specific risks in Alzheimer disease under the four diagnostic criteria discussed in Chapter 1. The estimated risks are shown in Tables 2.1 - 2.4 , with plots of the risks shown in Figures 2.1 - 2.4. As can be clearly seen in the figures, the difference between the Weinberg and life-table estimates is much smaller than the difference between the life-table and the Kaplan-Meier estimates, with the size of the deviations increasing with age. This is due to the relatively heavy censoring in this data set. This heavy censoring is to be expected if the risk for Alzheimer's was 50% by age 90, on average well over half the members of the sample would have 13 censored observations. However, all three estimators show similar risk curves under the four diagnostic criteria. In particular, except for the FAD only criteria, the risk estimates are not consistent with the 50% risks by age 90 found by other researchers. This suggests that not all Alzheimer's is due to an autosomal dominant trait with complete penetrance by age 90. The risk for dementia by age 90 under the four criteria and the three estimators is shown in Table 2.5. However, this method calculates risks to certain ages, not lifetime risk. The latter is what is needed to make better statements about the plausibility of the autosomal dominant model. 14 Table 2.1: Age-Specific Risks Under Stringent without FAD Criteria Age Total Affected Withdrawn Weinberg Life-Table Kaplan-Meier 0 766 0 13 0.000 0.000 0.000 1 753 0 3 0.000 0.000 0.000 2 750 0 5 0.000 0.000 0.000 3 745 0 1 0.000 0.000 0.000 4 744 0 2 0.000 0.000 0.000 5 742 0 1 0.000 0.000 0.000 6 741 0 2 0.000 0.000 0.000 7 739 0 0 0.000 0.000 0.000 8 739 0 1 0.000 0.000 0.000 9 738 0 0 0.000 0.000 0.000 10 738 0 0 0.000 0.000 0.000 11 738 0 0 0.000 0.000 0.000 12 738 0 1 0.000 0.000 0.000 13 737 0 0 0.000 0.000 0.000 14 737 0 0 0.000 0.000 0.000 15 737 0 0 0.000 0.000 0.000 16 737 0 0 0.000 0.000 0.000 17 737 0 0 0.000 0.000 0.000 18 737 0 5 0.000 0.000 0.000 19 732 0 1 0.000 0.000 0.000 20 731 0 9 0.000 0.000 0.000 21 722 0 8 0.000 0.000 0.000 22 714 0 3 0.000 0.000 0.000 23 711 0 1 0.000 0.000 0.000 24 710 0 1 0.000 0.000 0.000 25 709 0 5 0.000 0.000 0.000 26 704 0 0 0.000 0.000 0.000 27 704 0 1 0.000 0.000 0.000 28 703 0 3 0.000 0.000 0.000 29 700 0 3 0.000 0.000 0.000 30 697 0 6 0.000 0.000 0.000 31 691 0 2 0.000 0.000 0.000 32 689 0 0 0.000 0.000 0.000 33 689 0 2 0.000 0.000 0.000 34 687 0 0 0.000 0.000 0.000 35 687 0 10 0.000 0.000 0.000 36 677 0 0 0.000 0.000 0.000 37 677 0 0 0.000 0.000 0.000 38 677 0 3 0.000 0.000 0.000 39 674 0 0 0.000 0.000 0.000 40 674 0 9 0.000 0.000 0.000 41 665 0 1 0.000 0.000 0.000 42 664 0 3 0.000 0.000 0.000 43 661 0 2 0.000 0.000 0.000 44 659 0 0 0.000 0.000 0.000 45 659 0 8 0.000 0.000 0.000 46 651 0 1 0.000 0.000 0.000 15 47 650 0 2 0.000 0.000 0.000 48 648 0 5 0.000 0.000 0.000 49 643 0 4 0.000 0.000 0.000 50 639 1 6 0.000 0.000 0.000 51 632 0 1 0.002 0.002 0.002 52 631 1 4 0.002 0.002 0.002 53 626 0 5 0.003 0.003 0.003 54 621 0 3 0.003 0.003 0.003 55 618 0 17 0.003 0.003 0.003 56 601 0 9 0.003 0.003 0.003 57 592 0 7 0.003 0.003 0.003 58 585 0 14 0.003 0.003 0.003 59 571 0 5 0.003 0.003 0.003 60 566 1 24 0.003 0.003 0.003 61 541 1 5 0.005 0.005 0.005 62 535 1 12 0.007 0.007 0.007 63 522 1 21 0.009 0.009 0.009 64 500 1 13 0.011 0.011 0.011 65 486 1 32 0.013 0.013 0.012 66 453 0 15 0.015 0.015 0.015 67 438 1 21 0.015 0.015 0.015 68 416 0 21 0.017 0.017 0.017 69 395 2 15 0.017 0.017 0.017 70 378 1 43 0.022 0.022 0.022 71 334 1 10 0.025 0.025 0.024 72 323 1 28 0.028 0.028 0.027 73 294 2 20 0.031 0.031 0.030 74 272 3 13 0.038 0.038 0.037 75 256 1 40 0.049 0.049 0.047 76 215 2 18 0.053 0.053 0.051 77 195 0 9 0.062 0.062 0.060 78 186 0 27 0.062 0.062 0.060 79 159 1 8 0.062 0.062 0.060 80 150 3 36 0.068 0.068 0.066 81 111 0 11 0.090 0.089 0.085 82 100 1 8 0.090 0.089 0.085 83 91 0 6 0.099 0.099 0.094 84 85 0 16 0.099 0.099 0.094 85 69 1 20 0.099 0.099 0.094 86 48 0 12 0.114 0.114 0.107 87 36 0 8 0.114 0.114 0.107 88 28 0 4 0.114 0.114 0.107 89 24 0 5 0.114 0.114 0.107 90 19 0 3 0.114 0.114 0.107 91 16 0 1 0.114 0.114 0.107 92 15 0 5 0.114 0.114 0.107 93 10 0 2 0.114 0.114 0.107 94 8 0 1 0.114 0.114 0.107 95 7 0 1 0.114 0.114 0.107 96 6 0 3 0.114 0.114 0.107 97 3 0 2 0.114 0.114 0.107 98 1 0 1 0.114 0.114 0.107 16 Table 2.2: Age-Specific Risks Under Stringent with FAD Criteria Age Total Affected Withdrawn Weinberg Life-Table Kaplan-Meier 0 824 0 14 0.000 0.000 0.000 1 810 0 3 0.000 0.000 0.000 2 807 0 5 0.000 0.000 0.000 3 802 0 1 0.000 0.000 0.000 4 801 0 1 0.000 0.000 0.000 5 800 0 2 0.000 0.000 0.000 6 798 0 2 0.000 0.000 0.000 7 796 0 0 0.000 0.000 0.000 8 796 0 1 0.000 0.000 0.000 9 795 0 1 0.000 0.000 0.000 10 794 0 0 0.000 0.000 0.000 11 794 0 0 0.000 0.000 0.000 12 794 0 1 0.000 0.000 0.000 13 793 0 0 0.000 0.000 0.000 14 793 0 0 0.000 0.000 0.000 15 793 0 0 0.000 0.000 0.000 16 793 0 1 0.000 0.000 0.000 17 792 0 0 0.000 0.000 0.000 18 792 0 5 0.000 0.000 0.000 19 787 0 1 0.000 0.000 0.000 20 786 0 9 0.000 0.000 0.000 21 777 0 8 0.000 0.000 0.000 22 769 0 3 , 0.000 0.000 0.000 23 766 0 1 0.000 0.000 0.000 24 765 0 2 0.000 0.000 0.000 25 763 0 5 0.000 0.000 0.000 26 758 0 0 0.000 0.000 0.000 27 758 0 1 0.000 0.000 0.000 28 757 0 3 0.000 0.000 0.000 29 754 0 3 0.000 0.000 0.000 30 751 0 7 0.000 0.000 0.000 31 744 0 2 0.000 0.000 0.000 32 742 0 0 0.000 0.000 0.000 33 742 0 2 0.000 0.000 0.000 34 740 0 0 0.000 0.000 0.000 35 740 0 10 0.000 0.000 0.000 36 730 1 0 0.000 0.000 0.000 37 729 0 1 0.001 0.001 0.001 38 728 1 3 0.001 0.001 0.001 39 724 1 0 0.003 0.003 0.003 40 723 1 10 0.004 0.004 0.004 41 712 0 1 0.006 0.006 0.005 42 711 0 3 0.006 0.006 0.005 43 708 0 2 0.006 0.006 0.005 44 706 0 2 0.006 0.006 0.005 45 704 0 8 0.006 0.006 0.005 46 696 0 2 0.006 0.006 0.005 17 47 694 0 2 0.006 0.006 0.005 48 692 0 6 0.006 0.006 0.005 49 686 0 4 0.006 0.006 0.005 50 682 1 6 0.006 0.006 0.005 51 675 0 1 0.007 0.007 0.007 52 674 1 6 0.007 0.007 0.007 53 667 0 6 0.008 0.008 0.008 54 661 0 4 0.008 0.008 0.008 55 657 1 19 0.008 0.008 0.008 56 637 0 10 0.010 0.010 0.010 57 627 0 8 0.010 0.010 0.010 58 619 0 15 0.010 0.010 0.010 59 604 1 5 0.010 0.010 0.010 60 598 1 25 0.012 0.012 0.012 61 572 1 7 0.013 0.013 0.013 62 564 1 14 0.015 0.015 0.015 63 549 1 22 0.017 0.017 0.017 64 526 2 14 0.019 0.019 0.018 65 510 1 32 0.022 0.022 0.022 66 477 0 15 0.024 0.024 0.024 67 462 3 21 0.024 0.024 0.024 68 438 0 21 0.031 0.031 0.030 69 417 2 16 0.031 0.031 0.030 70 399 3 44 0.036 0.036 0.035 71 352 1 13 0.043 0.043 0.042 72 338 1 29 0.046 0.046 0.045 73 308 3 20 0.049 0.049 0.048 74 285 3 13 0.059 0.059 0.057 75 269 2 40 0.069 0.069 0.067 76 227 2 18 0.076 0.076 0.074 77 207 1 10 0.085 0.085 0.082 78 196 0 28 0.089 0.089 0.087 79 168 1 8 0.089 0.089 0.087 80 159 3 36 0.095 0.095 0.092 81 120 1 12 0.115 0.114 0.109 82 107 1 9 0.122 0.122 0.117 83 97 0 8 0.131 0.130 0.125 84 89 0 16 0.131 0.130 0.125 85 73 1 21 0.131 0.130 0.125 86 51 0 13 0.145 0.144 0.137 87 38 0 8 0.145 0.144 0.137 88 30 0 4 0.145 0.144 0.137 89 26 0 5 0.145 0.144 0.137 90 21 0 3 0.145 0.144 0.137 91 18 0 1 0.145 0.144 0.137 92 17 0 5 0.145 0.144 0.137 93 12 0 3 0.145 0.144 0.137 94 9 0 1 0.145 0.144 0.137 95 8 0 2 0.145 0.144 0.137 96 6 0 3 0.145 0.144 0.137 97 3 0 2 0.145 0.144 0.137 98 1 0 1 0.145 0.144 0.137 18 Table 2.3: Age-Specific Risks Under Relaxed Criteria Age Total Affected Withdrawn Weinberg Life-Table Kaplan-Meier 0 825 0 14 0.000 0.000 0.000 1 811 0 3 0.000 0.000 0.000 2 808 0 5 0.000 0.000 0.000 3 803 0 1 0.000 0.000 0.000 4 802 0 1 0.000 0.000 0.000 5 801 0 2 0.000 0.000 0.000 6 799 0 2 0.000 0.000 0.000 7 797 0 0 0.000 0.000 0.000 8 797 0 1 0.000 0.000 0.000 9 796 0 1 0.000 0.000 0.000 10 795 0 0 0.000 0.000 0.000 11 795 0 0 0.000 0.000 0.000 12 795 0 1 0.000 0.000 0.000 13 794 0 0 0.000 0.000 0.000 14 794 0 0 0.000 0.000 0.000 15 794 0 0 0.000 0.000 0.000 16 794 0 1 0.000 0.000 0.000 17 793 0 0 0.000 0.000 0.000 18 793 0 5 0.000 0.000 0.000 19 788 0 1 0.000 0.000 0.000 20 787 0 9 0.000 0.000 0.000 21 778 0 8 0.000 0.000 0.000 22 770 0 3 0.000 0.000 0.000 23 767 0 1 0.000 0.000 0.000 24 766 0 2 0.000 0.000 0.000 25 764 0 5 0.000 0.000 0.000 26 759 0 0 0.000 0.000 0.000 27 759 0 1 0.000 0.000 0.000 28 758 0 3 0.000 0.000 0.000 29 755 0 3 0.000 0.000 0.000 30 752 0 7 0.000 0.000 0.000 31 745 0 2 0.000 0.000 0.000 32 743 0 0 0.000 0.000 0.000 33 743 0 2 0.000 0.000 0.000 34 741 0 0 0.000 0.000 0.000 35 741 0 10 0.000 0.000 0.000 36 731 1 0 0.000 0.000 0.000 37 730 0 1 0.001 0.001 0.001 38 729 1 3 0.001 0.001 0.001 39 725 1 0 0.003 0.003 0.003 40 724 1 10 0.004 0.004 0.004 41 713 0 1 0.006 0.006 0.005 42 712 0 3 0.006 0.006 0.005 43 709 0 2 0.006 0.006 0.005 44 707 0 2 0.006 0.006 0.005 45 705 0 8 0.006 0.006 0.005 46 697 0 2 0.006 0.006 0.005 19 47 695 0 2 0.006 0.006 0.005 48 693 0 6 0.006 0.006 0.005 49 687 0 4 0.006 0.006 0.005 50 683 1 6 0.006 0.006 0.005 51 676 0 1 0.007 0.007 0.007 52 675 1 6 0.007 0.007 0.007 53 668 0 6 0.008 0.008 0.008 54 662 0 4 0.008 0.008 0.008 55 658 1 19 0.008 0.008 0.008 56 638 0 10 0.010 0.010 0.010 57 628 0 8 0.010 0.010 0.010 58 620 0 15 0.010 0.010 0.010 59 605 2 5 0.010 0.010 0.010 60 598 2 25 0.013 0.013 0.013 61 571 1 7 0.017 0.017 0.016 62 563 1 14 0.018 0.018 0.018 63 548 1 22 0.020 0.020 0.020 64 525 2 13 0.022 0.022 0.022 65 510 1 32 0.026 0.026 0.025 66 477 0 15 0.028 0.028 0.027 67 462 3 21 0.028 0.028 0.027 68 438 0 21 0.034 0.034 0.034 69 417 2 16 0.034 0.034 0.034 70 399 3 44 0.039 0.039 0.038 71 352 1 13 0.047 0.047 0.046 72 338 2 29 0.049 0.049 0.048 73 307 3 20 0.055 0.055 0.054 74 284 6 13 0.065 0.065 0.063 75 265 4 40 0.085 0.085 0.083 76 221 2 18 0.100 0.100 0.097 77 201 1 10 0.109 0.108 0.105 78 190 0 24 0.113 0.113 0.109 79 166 2 8 0.113 0.113 0.109 80 156 4 35 0.124 0.124 0.120 81 117 1 12 0.150 0.149 0.143 82 104 2 9 0.158 0.157 0.150 83 93 1 8 0.175 0.174 0.166 84 84 1 16 0.184 0.183 0.175 85 67 1 18 0.195 0.194 0.185 86 48 0 12 0.209 0.208 0.197 87 36 1 8 0.209 0.208 0.197 88 27 0 3 0.234 0.232 0.220 89 24 0 5 0.234 0.232 0.220 90 19 0 3 0.234 0.232 0.220 91 16 0 0 0.234 0.232 0.220 92 16 0 5 0.234 0.232 0.220 93 11 0 3 0.234 0.232 0.220 94 8 0 0 0.234 0.232 0.220 95 8 0 2 0.234 0.232 0.220 96 6 0 3 0.234 0.232 0.220 97 3 0 2 0.234 0.232 0.220 98 1 0 1 0.234 0.232 0.220 20 Table 2.4: Age-Specific Risks Under FAD Only Criteria Age Total Affected Withdrawn Weinberg Life-Table Kaplan-Meier 0 62 0 3 0.000 0.000 0.000 1 59 0 0 0.000 0.000 0.000 2 59 0 0 0.000 0.000 0.000 3 59 0 0 0.000 0.000 0.000 4 59 0 0 0.000 0.000 0.000 5 59 0 1 0.000 0.000 0.000 6 58 0 0 0.000 0.000 0.000 7 58 0 0 0.000 0.000 0.000 8 58 0 0 0.000 0.000 0.000 9 58 0 1 0.000 0.000 0.000 10 57 0 0 0.000 0.000 0.000 11 57 0 0 0.000 0.000 0.000 12 57 0 0 0.000 0.000 0.000 13 57 0 0 0.000 0.000 0.000 14 57 0 0 0.000 0.000 0.000 15 57 0 0 0.000 0.000 0.000 16 57 0 1 0.000 0.000 0.000 17 56 0 0 0.000 0.000 0.000 18 56 0 0 0.000 0.000 0.000 19 56 0 0 0.000 0.000 0.000 20 56 0 0 0.000 0.000 0.000 21 56 0 0 0.000 0.000 0.000 22 56 0 0 0.000 0.000 0.000 23 56 0 0 0.000 0.000 0.000 24 56 0 1 0.000 0.000 0.000 25 55 0 0 0.000 0.000 0.000 26 55 0 0 0.000 0.000 0.000 27 55 0 0 0.000 0.000 0.000 28 55 0 0 0.000 0.000 0.000 29 55 0 0 0.000 0.000 0.000 30 55 0 1 0.000 0.000 0.000 31 54 0 0 0.000 0.000 0.000 32 54 0 0 0.000 0.000 0.000 33 54 0 0 0.000 0.000 0.000 34 54 0 0 0.000 0.000 0.000 35 54 0 0 0.000 0.000 0.000 36 54 1 0 0.000 0.000 0.000 37 53 0 1 0.019 0.019 0.019 38 52 1 0 0.019 0.019 0.019 39 51 1 0 0.038 0.037 0.037 40 50 1 1 0.057 0.056 0.056 41 48 0 0 0.076 0.075 0.075 42 48 0 0 0.076 0.075 0.075 43 48 0 0 0.076 0.075 0.075 44 48 0 2 0.076 0.075 0.075 45 46 0 0 0.076 0.075 0.075 46 46 0 1 0.076 0.075 0.075 21 47 45 0 0 0.076 0.075 0.075 48 45 0 1 0.076 0.075 0.075 49 44 0 0 0.076 0.075 0.075 50 44 0 0 0.076 0.075 0.075 51 44 0 0 0.076 0.075 0.075 52 44 0 2 0.076 0.075 0.075 53 42 0 1 0.076 0.075 0.075 54 41 0 1 0.076 0.075 0.075 55 40 1 2 0.076 0.075 0.075 56 37 0 2 0.100 0.099 0.098 57 35 0 1 0.100 0.099 0.098 58 34 0 1 0.100 0.099 0.098 59 33 1 0 0.100 0.099 0.098 60 32 0 0 0.128 0.126 0.126 61 32 0 2 0.128 0.126 0.126 62 30 0 2 0.128 0.126 0.126 63 28 0 1 0.128 0.126 0.126 64 27 1 0 0.128 0.126 0.126 65 26 0 0 0.161 0.159 0.158 66 26 0 0 0.161 0.159 0.158 67 26 2 0 0.161 0.159 0.158 68 24 0 0 0.228 0.223 0.223 69 24 0 1 0.228 0.223 0.223 70 23 3 1 0.228 0.223 0.223 71 19 0 3 0.338 0.327 0.324 72 16 0 1 0.338 0.327 0.324 73 15 2 0 0.338 0.327 0.324 74 13 0 0 0.433 0.417 0.414 75 13 1 0 0.433 0.417 0.414 76 12 0 0 0.478 0.462 0.459 77 12 1 1 0.478 0.462 0.459 78 10 0 1 0.526 0.508 0.504 79 9 0 0 0.526 0.508 0.504 80 9 0 0 0.526 0.508 0.504 81 9 1 1 0.526 0.508 0.504 82 7 0 1 0.585 0.566 0.559 83 6 0 2 0.585 0.566 0.559 84 4 0 0 0.585 0.566 0.559 85 4 0 1 0.585 0.566 0.559 86 3 0 1 0.585 0.566 0.559 87 2 0 0 0.585 0.566 0.559 88 2 0 0 0.585 0.566 0.559 89 2 0 0 0.585 0.566 0.559 90 2 0 0 0.585 0.566 0.559 91 2 0 0 0.585 0.566 0.559 92 2 0 0 0.585 0.566 0.559 93 2 0 1 0.585 0.566 0.559 94 1 0 0 0.585 0.566 0.559 95 1 0 1 0.585 0.566 0.559 96 0 0 0 0.585 0.566 0.559 22 Table 2.5: Risk for Dementia at Age 90 with Standard Errors. Criteria Weinberg Life-table Kaplan-Meier Stringent without FAD 0.114 (0.026) 0.114 (0.026) 0.107 (0.023) Stringent with FAD 0.145 (0.026) 0.144 (0.026) 0.137 (0.024) Relaxed 0.234 (0.039) 0.232 (0.039) 0.220 (0.036) FAD Only 0.585 (0.103) 0.566 (0.102) 0.559 (0.101) 23 Figure 2.1: Age-Specific Risks Under Stringent without FAD Criteria 24 Figure 2.3: Age-Specific Risks Under Relaxed Criteria 25 3 Lifetime Risk Estimation Using Fixed Age of Onset Distributions 3.1 Background Early methods for estimating the proportion of the relatives susceptible to disease, or their lifetime risk, p, used a fixed, predetermined weight function w(t), believed to approximate the true age of onset distribution F(t) = P[affected by age t I susceptible] in the relatives. The age of onset distribution gives a measure of risk experienced, assuming the relative would get the disease if they lived long enough. Since some unaffected relatives could still be at risk for disease, using this weight function should give a better estimate of lifetime risk than the biased sample proportion of affected relatives. 3.2 Model and Estimators Similarly to the product-limit procedure, assume that the lifetime risk and the age of onset distribution are the same for each relative in the sample and that the status for each relative is independent of the rest. The data required for relative i, i=l,...,n in the sample is the pair (x;,̂ ) where Denote the true and approximate conditional risks for relative i as f t  = F(tj) and Wj = w(tj). If the random variable Xj denotes the status of relative i at age tj, E[Xj] = pF(ti) = pf ; . Some general weight functions used in the past are: 0 t < ai 0 1 if relative i is unaffected if relative i is affected ti = age of observation for relative i = age at death current age if relative i has died if relative i is alive 1) w(t) = /- ai<t<a 2 Weinberg (1925) 1 t > a 2 26 0 t < a 2) w(t) = { _ Larsson & Strogren (1954) U t > a 0 t < ai 3) w(t) = 1—^- ai < t < a 2 Schulz (1937) a2-ai 1 t > a2 where [a1,a2] is the age range of susceptibility and a is the mean age of onset. 4) Stromgren (1935) recommended that a previously observed age of onset distribution be used. Similar to this is the use of the empirical distribution function of the ages of onset of the index cases as used by Winokur et al. (1969). A valid weight function w(t) is one that satisfies the following conditions: 1) w(t):[0,~) [0,1], 2) w(t) is non-decreasing, 3) lim w(t) = 1 t-»<x> While the condition w(0) = 0 is not necessary in theory, it is usually appropriate. The situation where w(0) > 0 implies that the condition can be present at birth. The following three estimates for lifetime risk have been proposed. 3.2.1 Original Stromgren (1935): n i=l n i=l This estimator is an extension of the sample proportion. This estimator has the undesirable property that it is possible for p* > 1. However in most situations the probability of this happening should be extremely low. 27 The bias of p* is easily calculated: n Zpfi n Bias(p*) = E[p*] - p = ^- p = p 2 Wi i=l n i=l This estimator will be unbiased only if ^ fi = 2 w i - ^ particular, p* is unbiased if the i=l i=i correct weight function is used. The sample proportion (which occurs with the weight function w(t) = 1), as expected, is usually biased, since f; < 1. Assuming the correct weight function has been chosen, the variance of p* (Larsson & Sjogren, 1954) is X PWi(l -pwi) / Var[p*]= 1 = 1 n 2 _i=l _ p 1-p i=l Some incorrect formulas for the variance which have been reported previously are P ( l - P ) 1) (valid only when w; = 1) (Winokur et al, 1969). P(l - P) 2) — which was pointed out previously as an incorrect formula by Larsson and Sjogren (1954). Risch (1983) also pointed out the Larsson and Sjogren formula is incorrect if one sets the estimate of p to 1 when p* > 1. With assumptions on the sequence w i 5 such as they don't approach 0, p* is asymptotically normal. Risch (1983) suggested using the asymptotic normality property for the construction of confidence intervals and hypothesis tests. To avoid parameter estimates greater than one, Stromgren suggested the following modification to the estimator. 28 3.2.2 Modified Stromgren (1938): i=l S W i + S I 1 - w i ) x i 2 x i+X ( 1 _ X i ) W i i=l fe=l M i=l This estimator always satisfies the condition of p' < 1, as the denominator is always greater that the number of affected people. However in situations where p* is unbiased, p' will be have a negative bias since p' < p*. This can is easily shown since n n n ^ Wi < X w i + 2 _ W i ) X i • F1 M i=l The difference between the Stromgren and the Modified Stromgren estimators appears to be an increasing function of p*. This also suggests that when p* is unbiased, the bias of p' is an increasing function of p. A third proposal takes a maximum likelihood approach to the problem. 3.2.3 Maximum Likelihood (Risch, 1983): The maximum likelihood estimate p is estimated by maximizing L(p) or log L(p), the likelihood or log-likelihood functions: n L(p)=n(p w i) x i ( i -p w0 1^ n n n log L(p) = log p X x i + X X i lo§ W i + X (* _ x0 loS I 1 ~ Pw0- i=l M i=l The estimate can be found by solving the following equation "Xj (1 - XjjWjl p 1-pwi d log L(p) dp .-I p i=i = 0. (3) This equation does not have a closed form solution but can be solved easily and quickly by the Newton-Raphson method. As the second derivative of log L(p) can be shown to be less than or equal to 0 for all pe (0,1], there is a unique pe [0,1] which maximizes log 29 L(p). As with the Stromgren estimator, using the solution to (3) can lead to an estimate greater than 1. This will occur when d log L(p) p=i = m > o . tr i-wi dp If this occurs, p = 1. Estimates of the variance of p can be obtained using the observed or the expected information. The observed information is: X i  (l-Xi)w 21 I 0 ( p ) =  _ d ! i 2 l L ( p ) = n dp z 2 i=l /""(l-pwi) 2 and the expected information is l E ( p ) = _ E t a ] 4 b + ^ L dp 2  J a[p 2  (l-pwi) 2 When evaluated at the maximum likelihood estimate: - I i=l W; W: + • P l-pwi io(p) = 2 -2 i=l jq (1-X J ) W 2 P 2 (l-pwi) 2 l(l- X i )wi (l-xjw 2 p (l-pwi) (l-pwi)' = S i=l I E ( P ) = 2 i=l ' l-xj- 1̂ -pw i; 2 \ Wi W; — + • \V l-pwi/ — + w ; P l-pwi It is not immediately obvious whether IE(P)" 1  or IQ(P)" 1  would better estimate the variance; it appears that both would give similar values. The one advantage to using IQ(P)  1  * s m a t  ̂  * s  calculated when the Newton-Raphson method is used for estimation. 30 As the method of estimation is maximum likelihood, p is asymptotically normal allowing the construction of confidence intervals and hypothesis tests. Risch (1983) also proposes using the likelihood ratio test to compare estimates of p among two of more groups. Misspecification of the weight function can lead to problems, as with p*. As may not be zero when an inappropriate weight function is chosen, p may not be a consistent estimator and one or both of the variance estimates may be poor. Risch showed that p is more efficient than p* and the efficiency of p* relative to p is independent of the sample size. Risch also showed that: 3.3 Results Three different weight functions, as displayed in Table 3.1, were chosen to analyze the Alzheimer and the Winokur data sets. The plots of these functions are shown in Figures 3.1 and 3.2. The first two were chosen to roughly match the lower and upper observed ages of onset of the index cases and the relatives in the appropriate data sets. n n where W = X  w i  a n d Wj = X v r l - i=l j=l 31 Table 3.1 Weight Functions Used Alzheimer Winokur 1) Half Risk (0 t<34 wf(t) = j i 35<t<90 (l t > 91 10 t < 14 w^(t) = U 15<t<70 (l t > 71 2) Uniform [0 t<34 w 2 ( t ) = r i r 3 5 - 1 - 9 0 (l t > 91 (0 t < 14 w7(t) = ' ^ - 15<t<70 (l t > 71 3) Empiric CDF w^(t) = empiric distribution function of age of onset of index cases, regardless of diagnostic criteria w w 3  (t) = empiric distribution function of age of onset of index cases 32 Figure 3.1: Alzheimer Weight Functions a> '63 1.001 0.80- 0.60" 0.40" 0.20" 0.00 • at* • Empiric CDF • Half Risk B Uniform Age Figure 3.2: Winokur Weight Functions at '3 5 1.001 0.80 0.60- 0.40- 0.20 0.00 E E O Q Q 1DDDI . E D BEET . B E E T JDD Q Empiric CDF • Half Risk D Uniform -<—i—<~ 1 — 1 — i — ' — i — • — i — • — r -<—i—•—r 10 15 20 25 30 35 40 45 50 55 60 65 70 75 Age 33 As in Chapter 2, the Alzheimer data set was analyzed under the four criteria. One family (MM Pedigree, Figure 1.1) can greatly influence the results using the methods to be discussed in Chapter 4. It was felt that the data should be analyzed twice, with and then without this family, for the criteria containing the possible FAD families to see what effect this family has on this type of estimation. For the reanalysis, weight functions one and two were unaltered, but the empiric distribution function was modified to exclude the age of onset for the index case of the MM family. Generally under each criterion for the Alzheimer data, the three weight functions seem to give similar risk estimates for each of the three estimators (Tables 3.1 - 3.4). The standard errors shown were calculated using the expected information. The increasing difference between the modified Stromgren and the Stromgren estimators with increasing p* is suggested in the tables. The maximum likelihood and Stromgren estimators agree very closely under the Stringent without FAD, Stringent with FAD, and Relaxed Criteria for each of the weight functions. The largest differences between the maximum likelihood and the Stromgren estimators occurs under the FAD only criteria. However with the small number of relatives in the group, the differences are all less than one standard error. Also the exclusion of MM family appears to make little difference in the lifetime risk estimates with the biggest difference occurring under the FAD only criteria. Except for the FAD only group, under these three weight functions, the lifetime risk for Alzheimer disease does not approach the 50% rate consistent with an autosomal dominant trait. In fact for these criteria, the lifetime risk estimates appear to be lower (though not significantly lower) than the age-specific risks to age 90 calculated by the product-limit estimators. This suggests that a poor set of weight functions may have been used. For the Winokur data set, changing the weight function appears to make a great difference in the estimates (see Table 3.6). The estimates using the empirical distribution function are much lower than those for the other two weight functions. As the empirical distribution dominates the other weight functions for ages greater than 22, the large 34 differences are not surprising. It is not clear which of these three is the best choice for the weight function. However the ages of onset in the index cases appear to be less than the ages of onset in their relatives, suggesting that the empiric distribution may be a poor choice. As it appears that a poor choice of onset distribution can lead to poor a estimate of lifetime risk, this suggests that a better procedure which will also estimate the age of onset distribution is needed. An extension to the maximum likelihood procedure of this chapter allowing the estimation of lifetime risk and the age of onset distribution will be discussed in the next chapter. 35 Table 3.2: Lifetime Risk Under Stringent without FAD Criteria Weight Function Method Risk (SE) Half Risk Stromgren Modified Stromgren Maximum Likelihood 0.093 (0.016) 0.081 0.094 (0.016) Uniform Stromgren Modified Stromgren Maximum Likelihood 0.077 (0.013) 0.067 0.077 (0.013) Empiric CDF Stromgren Modified Stromgren Maximum Likelihood 0.078 (0.013) 0.067 0.078 (0.013) Table 3.3: Lifetime Risk Under Stringent with FAD Criteria Weight Function Method Risk (SE) With MM Family Risk (SE) Without MM Family Half Risk Stromgren Modified Stromgren Maximum Likelihood 0.131 (0.018) 0.109 0.131 (0.018) 0.122 (0.017) 0.102 0.122 (0.017) Uniform Stromgren Modified Stromgren Maximum Likelihood 0.109 (0.015) 0.092 0.109 (0.015) 0.100(0.014) 0.085 0.101 (0.014) Empiric CDF Stromgren Modified Stromgren Maximum Likelihood 0.111 (0.015) 0.093 O.I'll (0.015) 0.103 (0.015) 0.086 0.103 (0.015) 36 Table 3.4: Lifetime Risk Under Relaxed Criteria Weight Function Method Risk (SE) With MM Family Risk (SE) Without MM Family Half Risk Stromgren Modified Stromgren Maximum Likelihood 0.189 (0.021) 0.146 0.190 (0.021) 0.180 (0.021) 0.140 0.181 (0.021) Uniform Stromgren Modified Stromgren Maximum Likelihood 0.157 (0.017) 0.123 0.159 (0.018) 0.149 (0.017) 0.117 0.151'(0.017) Empiric CDF Stromgren Modified Stromgren Maximum Likelihood 0.160 (0.018) 0.124 0.160 (0.018) 0.152 (0.017) 0.118 0.153 (0.017) Table 3.5: Lifetime Risk Under FAD Only Criteria Weight Function Method Risk (SE) With MM Family Risk (SE) Without MM Family Half Risk Stromgren Modified Stromgren Maximum Likelihood 0.630 (0.124) 0.324 0.597 (0.121) 0.531 (0.124) 0.295 0.509 (0.122) Uniform Stromgren Modified Stromgren Maximum Likelihood 0.610 (0.114) 0.313 0.554 (0.110) 0.486 (0.110) 0.268 0.476 (0.108) Empiric CDF Stromgren Modified Stromgren Maximum Likelihood 0.677 (0.112) . 0.332 0.556 (0.108) 0.528 (0.111) 0.279 0.486 (0.108) 37 Table 3.6: Lifetime Risk for Winokur Data Set Weight Function Method Risk (SE) Half Risk Stromgren Modified Stromgren Maximum Likelihood 0.552 (0.076) 0.288 0.511 (0.076) Uniform Stromgren Modified Stromgren Maximum Likelihood 0.600 (0.083) 0.311 0.575 (0.081) Empiric CDF Stromgren Modified Stromgren Maximum Likelihood 0.355 (0.052) 0.215 0.361 (0.052) 38 4 Lifetime Risk and Age of Onset Distribution Estimation 4.1 Background The two methods discussed in the previous chapters, while computationally attractive, have major drawbacks. The product-limit procedures, which give good estimates of age- specific risks, cannot give the lifetime risk for disease unless possibly unreasonable assumptions are made. The fixed weight (age of onset) function approaches, though giving easily calculated lifetime risk estimates, can give poor estimates if an inappropriate weight function is used. Risch (1983) suggested a maximum likelihood approach for calculating morbidity risks for diseases with late variable onset. It allows for the simultaneous estimation of lifetime risk and the age of onset distribution. This approach has also been used by Pericak-Vance et al (1983) to study the heterogeneity of age of onset of Huntington disease. 4.2 Model and Estimation It is assumed that each relative belongs to one of two groups, susceptible or not susceptible with: For those in the susceptible group, it is assumed that their age of onset can be described by a distribution function F(.I9_) belonging to a class of distributions parametrized by 0 = (9 l5 ...,0 k ) e @. Let the corresponding density function be f(.l0_). For each relative i, let the random variable denote the person's status and the random variable Tj denote the observation time. where age at FH is the age of a live relative when the family history was collected . P[susceptible] = p = 1 - P[not susceptible]. 0 if person i is unaffected 1 if person i is affected Let q age at onset if S j = 1 and age of onset is known age at FH/Death if S ; = 1 and age of onset is unknown or if S j = 0 39 Also, if appropriate, let x.i be a vector of covariates for person i. Examples of possible covariates are sex, information on other medical conditions, or age of onset of the index case. Then one or both of p and 0_ could be functions of x. Then (with the possible dependence on X j suppressed) P[Si = 11 Ti = tj = P[Si = 1, susceptible I Ti = tj + P[Si = 1, not susceptible I Ti = tj = P[susceptible] P[Si = 1 I Tj = ti, susceptible] + P[not susceptible] P[Si = 1 I Ti = ti, not susceptible] = pFdiiej and P[Si = 0 I Ti = tj = P[Si = 0, susceptible I Ti = tj + P[Si = 0, not susceptible I Ti = tj = P[susceptible] P[Si = 0 I Ti = ti, susceptible] + P[not susceptible] P[Si = 0 I Ti = ti, not susceptible] = p(l - F(tiiej) + (1-p) = 1 - pFfolfi) Assume there are n relatives with relatives 1 to affected with known age of onset, n t  + 1 to n 2  affected with unknown age of onset, and n 2  + 1 to n unaffected. Then the likelihood function and log likelihood functions are: ni n.2 n L(p.fi) = II pf(tiie) n pFwa) n [i-pFteifi)] i=l i=ni+l i=ri2+l ni m n logL(p,G) =n 2 logp + X log f(tilfl)+ £ logF(til6)+ £ log[l - pF(tilfi)] i=l i=ni+l i=n.2+l (It should be noted that there is a mistake in the first term of the log likelihood function (12) in Risch's paper. The correct term is n 2  log p, not (^ + n 2 ) log p). The maximum likelihood estimates for p, 0_ (denoted by p, 0J can be calculated by standard procedures. 40 Now assume f(tl0_) has continuous first and second partial derivatives with respect to 9 and that the set {t I f(tl0) > 0} doesn't depend on 0. If the order of integration and differentiation can be changed, the first and second partial derivatives of F(tl0_) exist implying that L(p,0) and log L(p,0J will also have continuous first and second partial derivatives. Then the maximum likelihood estimate (p, 0_) satisfies the following system of equations (assuming it doesn't occur on the boundary of the parameter space): 9 log L(p,0) dp 9 log L(p,0J -52. n y P i=n2+l F( ti l0) 30i Li-pF(tiie) z i=ni+l = 0 ^ a log f(tjia) y a log F( ti i0_) 1 i==n.2+l 30i d F(ti l0) .l-pF(tiia) 3 0 i = 0;i=l,...,k For most if not all choices of F, this system of equations will not have a closed form solution and must be solved numerically. The Newton-Raphson method appears useful here as it has good convergence properties and gives an estimate of the variance-covariance matrix of the parameter estimates. However for some families of distributions, such as the gamma, some of the partial derivatives are difficult to calculate, suggesting a quasi-Newton- Raphson approach would be more appropriate. One problem with a Newton-Raphson type approach is that the procedure may not converge if poor initial estimates are chosen. Some of the time this can be overcome some of the time by scaling the difference between iterates or by replacing intermediate values outside the parameter space with values contained in the parameter space. Otherwise, the likelihood function will have to be investigated to find better initial estimates. It appears that the quality of the choice of initial estimates is less important for some choices of the age of onset distribution such as the logistic. In some cases, it is possible that the maximum likelihood estimate may occur on the boundary of the parameter space, for example p = 1. This situation can be suggested by the 41 Newton-Raphson iterations and must be confirmed by examining the likelihood function. In many cases when this happens, the parameter estimates can be found easily by fixing the appropriate parameters to their respective boundary values and estimating the rest by Newton-Raphson. Let I be the observed information matrix. When the estimates are in the interior of the parameter space, I" 1  provides an estimate of the variance-covariance of the parameter estimates. When the estimates of one or more parameters occurs on the boundary, the inverse of the observed information matrix may not be an appropriate estimate of the variance-covariance matrix as the required relationships 9 log L(p,9_) Bp 9 log L(p,9) = 0; p.e _ = 0;i=l,...,k p.e 98i will not necessarily hold. When the variance-covariance is well-defined, approximate confidence sets for the parameters can be constructed using standard multivariate normal theory, since maximum likelihood estimates are asymptotically normal. In particular, an approximate 100(l-a)% confidence interval for p is: J±Za/ 2 V[r 1 ] 0 ,0 where za/ 2  is the 1 - a/2 quantile for a standard normal distribution andfr^o is the entry in position (0,0) of T 1 . Once the parameter estimates have been calculated, age-specific risks like those calculated using the methods of Chapter 2 can also be estimated. Let r(t) = P[onset by age t] = P[susceptible] P[onset by age t I susceptible] = p F(tl9). 42 Then the maximum likelihood estimate of r(t) is r(t) = pF(tl0J and the following estimate of Var[r(t)] can be obtained by the delta method: F(tia) ~ 3F(tl9) P 90i ~ 3F(tl0) p aek Breitner et al. (1988) used a multi-stage procedure which approximates the general maximum likelihood procedure. They started by estimating age-specific risks R t  by the Kaplan-Meier procedure as discussed in Chapter 2. Then they assumed that the age of onset distribution was gamma (discussed in Section 4.3) and found the least-squares estimates of the lifetime risk and the parameters of the gamma distribution (denoted a and m) by finding the values of p,a,m which minimize: teT where T is the set of ages where at least one onset occurred and R t  is the age-specific risk at age t. Finally they proceeded to estimate the parameters of the gamma distribution by maximum likelihood by using the estimate of lifetime risk obtained from the least-squares procedure as if it were the known value of p. They claimed, due to technical reasons which were not stated, maximum likelihood fails to estimate lifetime risk, implying another procedure such as theirs is needed. 4 . 3 Age of Onset Distributions Five different classes of distribution were chosen to model age of onset for the two data sets. X (Rt - pF(tla,m; Of 43 4.3.1. Multiple Hit (Gamma): gm*m-l f(.la,m) =  W e « : Em-™: Var[T]=^ t>0, a>0, m = 1,2,3,... Under this model the time to onset is the time for m (possible hypothetical) hits or shocks of frequency a to occur. It is assumed that the times between hits are independent exponential random variables with mean = a" 1 . This model has been hypothesized by Breitner et al. (1986) as a possible model for describing the age of onset in Alzheimer disease. The estimation procedure used under the Multiple Hit model is slightly different than in the general situation presented earlier since the scale parameter is constrained to take on only integer values for interpretation purposes. Let L*(m) = sup{ p a } L(p,a,m) and p(m),a(m) be defined such that L(p(m),a(m),m) = L*(m). The values p(m) and a(m) can be calculated by Newton-Raphson for each m. Then define m* to be the smallest m to satisfy L*(m*) > L*(m) for all m * m*. Then the constrained maximum likelihood estimates for p, a, m are p = p(m ), a = a(m ), and By constraining m to be an integer, the gradient of log L(p,a,m) at the maximum likelihood estimate is not the zero vector. Because of this, the inverse of the observed information matrix may not be an appropriate estimate of the variance-covariance matrix, and therefore no estimate of the variance-covariance matrix will be reported. 4.3.2. Incubation (Lognormal): E[T] = exp(n+0.5a 2 ); Var[T] = exp(2p:+a2)(exp(G2) - 1) Sartwell (1950) showed that the incubation times for many infectious diseases could be described by a lognormal distribution. Later it was shown (Armenian and Khoury, 1981) that the age of onset for some non-infectious conditions, such as Huntington disease, could * m = m . 44 also be modeled using a lognormal distribution. By examining four data sets from the literature, Horner (1987) suggested that Alzheimer disease may also satisfy the lognormal model. 4.3.3. Logistic: f(tla,p) = (3  e < X + P * : t>0, -~<a<oo, (3>0 2 E[T]=-£; Var[T]=^- The logistic model was chosen since it has the computational advantage of having closed form expressions for f(tla,p), F(tla,|3) and their first and second partial derivatives. Also, this distribution has been used in modelling the age of onset in hereditary polyposis coli (Morales et al, 1984) 4.3.4. Normal: f(tlp.,a) = L>0, -°o<n<oo, o~>0 E[TJ = n; Var[T] = a 2 This class of distributions was chosen for two reasons. The first is that it was used by Risch (1983) in modelling the Winokur data set and and by Pericak-Vance et al. (1983) to model age of onset in Huntington's disease. Also the normal distribution is a limiting case for both of the gamma and lognormal distributions. 4.3.5. Normal with Covariate: f(tla,b,o\x) = * expl-̂ -(* ~^a+bx^n  :  t>0, -*o<a<°°, -=»<b<oo, a>0 E[Tlx] = a + bx; Var[Tlx] = a 2 where Xj = age of onset in index case of person i In some Alzheimer families it appears that the ages of onset are very similar (Sadovnick et al, 1988). One such example is shown in the pedigree of family MM (see Figure 1.1). It seems that a better fit may occur by trying to incorporate a distinct age of 45 onset distribution for each family. This type of model is desirable from a genetic counselling point of view as the smaller variation in the ages of onset, which would result in this model, would lead to better statements about risk. Assume the mean age of onset for person i can be modelled as m = a + bxj. A model which would be easy to interpret would have a = 0 and b ~ 1. This would imply that the index case's age of onset is a good predictor for the age of onset in other family members. If the parameter estimates were different than this, in particular b ̂  1, interpretation seems to be more difficult. As the method of estimation is maximum likelihood, the improvement of this model over the normal model can be assessed by looking at the likelihood ratio statistic testing the hypothesis of whether b is zero. The age of onset was not clear in a few of the index cases. So the two models could be compared, these few families were deleted from the data and the estimation for both models was done on the reduced data set. 4.4 Results Under each of the four diagnostic criteria for the Alzheimer data set all five models were fit. The parameter estimates with the estimates of the variance-covariance matrices where appropriate are shown in Tables 4.1 - 4.4 and plots of the age-specific risk are shown in Figures 4.1 to 4.7. The maximum likelihood estimates of the means and standard deviations shown in the tables under each age of onset model were calculated by: mean = E[Tfi]; SD = VVar[TlfiJ . Also shown in the tables are the values of the log-likelihood under each of the models. These can be used as rough guides to suggest distributions which may not be appropriate, but as the models are not nested, conventional hypothesis tests cannot be constructed. For the Alzheimer data set, the age of onset distribution for one family (MM pedigree; see Figure 1.1) is clearly different, than that of the rest of the study group. When this family is included in the data set the parameter estimates appear to be greatly influenced by this family. In fact in some cases the estimate of lifetime risk is one, which does not appear to make biological sense. The inclusion of this very young onset family also leads to the 46 estimate of the mean age of onset to be much larger than generally recognized, which seem to be counterintuitive. Therefore, where appropriate, the data was analyzed twice for each of the criteria for which the MM family would be included, once with the family included, then with the family excluded. The estimates calculated with the MM family excluded appear to be in much greater agreement with the published literature. Except for the FAD Only criteria analysis, the following relationship of the estimates holds: XN. X"V XS XS p (logistic) < p (normal) < p (gamma) < p (lognormal) mean (logistic) < mean (normal) < mean (gamma) < mean (lognormal) SD (logistic) < SD (normal) < SD (gamma) < SD (lognormal) Even though the four basic age of onset distributions can give estimates for lifetime risk which appear to be quite different, the age specific risks up to age 90, the upper bound on the data, appear to be almost the same. This can be seen in Figures 4.1 to 4.7. These age- specific risk estimates are also very similar to the product-limit estimates discussed in Chapter 2. One example showing the close agreement is given in Figure 4.8. Although the parameters calculated under a given criteria when the MM family is included and excluded can give very different values, the estimates of the age specific risk are again very similar. Two examples showing this are displayed in Figures 4.9 and 4.10. Using the age of onset as a predictor always appears to be a better model than the smaller normal model. The presence of the MM family with its very strong age correlation does not affect the decision about which is a more appropriate model, though it does influence the lifetime risk estimate. The effect of this family is much smaller here than for the other choices of distribution. As for the product-limit and fixed age of onset methods, there is no indication of a 50% risk by age 90 as has been suggested in the other studies mentioned, except under the FAD only criteria. As these are families which are believed to represent the genetic form of the disease, this is to be expected. If the lognormal distribution is appropriate, it appears that under the relaxed criteria the data is consistent with a lifetime risk of 50%, as 0.5 is contained 47 in the approximate 95% confidence interval for p. However this is the only case where this occurs. The parameter estimates for the Winokur data set are shown in Table 4.5 and the age-specific risks are shown in Figure 4.11. For this data set, the estimates for the lifetime risk and the mean and standard deviation for the age of onset distribution seem to be the same for the four basic models. However for this data set, using the age of onset of the index cases as a predictor doesn't give a significantly better fit. This suggests that the correlation of the ages of onset within families is not very strong in this data set. 48 Table 4.1: Parameter Estimates Under Stringent without FAD Criteria Model Gamma p = 0.186; a = 0.501; m = 41 mean = 81.791; SD = 12.774 log L = -205.830 Lognormal p = 0.2 mean = Var = logL = ,10; £ = 4.424; 5 = 0,175 84.692; SD = 14.969 0.013 0.012 0.004] 0.012 0.012 0.005 0.004 0.005 0.002J -206.053 Logistic p = 0.1 mean Var = logL = 46; a =-14.548; p = 0.189 = 77.121; SD =9.615 0.002 0.026 -0.001] 0.026 5.663 -0.081 -0.001 -0.081 0.001J -205.004 Normal p = 0.1 mean Var = logL: 57 £ = 78.436; o= 10.346 = 78.436; SD = 10.346 0.003 0.178 0.070] 0.178 17.333 7.259 0.070 7.259 4.444J = -205.490 Normal with Covariate p = 0.1 Var = logL = -2 log 52; a = 46.885; b = 0.453; 0 = 9.289 0.002 0.020 0.002 0.048] 0.020 149.158 -2.178 1.143 0.002 -2.178 0.034 0.0582 _ 0.048 1.143 0.058 3.362J -196.406 A = 5.791 49 Table 4.2: Parameter Estimates Under Stringent with FAD Criteria Model With MM Family Without MM Family Gamma p = 1; a = 0.076; m= 10 mean = 130.849; SD = 41.378 log L =-318.001 p = 0.208; a = 0.502; m = 40 mean = 79.673; SD = 12.597 log L = -278.671 Lognormal p = l;£ = 4.874; o = 0.391 mean = 141.205; SD = 57.447 log L =-318.489 p = 0.2 mean = Var = logL = 27; J = 4.390; 0 = 0.174 81.841; SD = 14.367 0.008 0.007 0.003] 0.007 0.007 0.003 0.003 0.003 0.00lj = -278.921 Logistic p = 0.2 mean = Var = logL = 21;a =-9.794; (3 = 0.123 79.552; SD = 14.739 0.004 0.029 -0.00l" 0.029 1.641 -0.025 -0.001 -0.025 0.0004 = -315.489 p = 0.1 mean = Var = logL = 76; a = -13.512; (3 = 0.177 76.174; SD = 10.225 0.001 0.021 -0.0004" 0.021 3.586 -0.052 -0.0004 -0.052 0.001 = -278.121 Normal p=0.3 mean = Var = logL = 59; JT = 90.109; a =19.235 90.109; SD = 19.235 0.061 3.357 1.094" 3.357 195.598 66.069 1.094 66.069 24.787 = -316.840 p = 0.1 mean = Var = logL = 83; p% 76.891; o = 10.468 76.891; SD = 10.468 0.002 0.127 0.052] 0.127 11.315 4.938 0.052 4.938 3.283J = -278.376 Normal with Covariate p = 0.2 a= 10 Var = logL = -2 log 07; a = 14.976; b = 0.930; .626 0.002 0.020 0.001 0.047 0.020 77.138 -1.139 0.456 0.001 -1.139 0.019 0.057 _ 0.047 0.456 0.057 2.873.  -293.114 A = 34.613 p = 0.1 a = 9. Var = logL = -2 log 79; a = 41.264; b = 0.516; _38 0.002 -0.001 0.001 0.033 -0.001 106.491 -1.581 0.121 0.001 -1.581 0.025 0.043 _ 0.032 0.121 0.043 2.217. = -266.893 A =10.131 50 Table 4.3: Parameter Estimates Under Relaxed Criteria Model With MM Family Without MM Family Gamma p = 1; a = 0.115; m = 13 mean = 113.536; SD = 31.489 log L =-387.195 p = 0.376; a = 0.424; m = 36 mean = 84.905; SD = 14.151 log L = -347.229 Lognormal p = 1; £ = 4.742; a = 0.328 mean = 121.069; SD = 40.833 log L = -388.362 p = 0.4 mean = Var = logL = 38; £ = 4.468; a = 0.190 88.752; SD = 16.974 0.046 0.022 0.007] 0.022 0.011 0.004 0.007 0.004 0.002J = -347.502 Logistic p = 0.3 mean = Var = logL = 51;oc =-10.586; J = 0.128 82.513; SD = 14.137 0.009 0.041 -0.001" 0.041 1.344 -0.020 -0.001 -0.020 0.0003.  -383.843 p = 0.2 mean = Var = logL = 81; a = -13.568; p = 0.171 79.095; SD = 10.574 0.003 0.032 -0.00 l l 0.032 2.543 -0.037 -0.001 -0.037 O.OOlJ = -346.465 Normal p = 0.7 mean = Var = logL = 26; £ = 97.372; o= 19.845 97.372; SD = 19.845 0.343 9.027 2.642" 9.027 245.855 74.220 2.642 74.220 24.068. = -385.745 p = 0.3 mean = Var = logL = 10; £=80.765; o= 11.300 80.765; SD = 11.300 0.007 0.288 0.112] 0.288 14.676 6.062 0.112 6.062 3.32lJ = -346.879 Normal with Covariate p = 0.3 o= 10 Var = logL = -2 log 37; a = 25.391; b = 0.804; .977 0.004 0.162 0.000 0.065 0.162 69.487 -0.929 3.427 0.000-0.929 0.014 0.002 _ 0.065 3.427 0.002 2.275.  -372.418 A = 31.789 J = 0.3 a = 9.c Var = logL = -2 log 20; a = 48.241; b = 0.454; 505 0.004 0.133 0.0002 0.0591 0.133 84.865 -1.167 3.029 0.0002-1.167 0.018 0.0002 _ 0.059 3.029 0.0002 1.964J = -344.751 A = 10.567 51 Table 4.4: Parameter Estimates under FAD Only Criteria Model With MM Family Without MM Family Gamma p = 1; a = 0.090; m = 8 mean = 89.027; SD = 31.476 log L = -86.032 p = 0.554; a = 0.766; m =54 mean = 70.457; SD = 9.588 log L =-59.129 Lognormal p = 1; £ = 4.428; o = 0.402 mean = 90.817; SD = 38.075 log L = -85.995 p = 0.5 mean = Var = logL = 62; £ = 4.251; a = 0.141 70.841; SD = 10.035 0.020 0.005 0.003" 0.005 0.003 0.002 0.003 0.002 0.002 = -59.168 Logistic p = 0.6 mean = Var = logL= 86;a = -6.700; p = 0.094 71.034; SD = 19.229 0.036 0.093 -0.003" 0.093 2.202 -0.036 -0.003 -0.036 0.001 -85.084 p = 0.5 mean = Var = logL = 52; a =-12.764; p = 0.181 70.387; SD = 10.002 0.016 0.100 -0.002] 0.100 11.248 -0.168 -0.002 -0.168 0.003J = -59.350 Normal p = 0.6 mean = Var = logL = 98; £ = 71.376; a= 18.892 71.376; SD = 18.892 0.058 2.000 0.982" 2.000 92.988 44.219 0.982 44.219 31.871 = -85.923 p = 0.5 mean = Var = logL = 42; £=69.945; a = 9.055 69.945; SD = 9.055 0.016 0.180 0.093" 0.180 9.895 3.801 0.093 3.801 5.623_ = -59.138 Normal with Covariate p = 0.5 a = 8.: Var = logL = -2 log 66;a = 4.084;b= 1.000; >45 0.014 0.014 0.002 0.069 0.014 89.037 1.439 0.239 0.002 -1.439 0.025 0.033 _ 0.069 0.239 0.033 3.219_ = -76.416 A= 19.115 p = 0.5 <5 = l.t Var = logL = -2 log 39; a = 39.477; b = 0.464; i23 0.015 0.044 0.002 0.058] 0.043 245.385 -3.752 2.0612 0.001 -3.752 0.059 0.002 _ 0.058 2.062 0.002 3.575J = -57.631 A = 3.015 52 Table 4.5: Parameter Estimates For Winokur Data Set Model Gamma p = 0.507; a = 0.175; m = 7 mean = 40.0; SD = 15.1 log L = -156.791 Lognormal p = 0.f mean Var = logL S39;p- =3.666; a = 0.429 = 42.873; SD =19.294 0.019 0.019 0.009] 0.019 0.027 0.012 0.009 0.012 0.008J = -156.301 Logistic p = 0/ mean Var = logL 157; a = -5.264; p = 0.145 = 36.346; SD = 12.524 0.006 0.007 -0.001] 0.007 0.662 -0.019 -0.001 -0.019 0.001J = -159.477 Normal p = 0.' mean Var = logL 178 £ = 37.801; a= 12.468 = 37.801; SD = 12.468 0.007 0.154 0.068] 0.154 10.275 4.142 0.068 4.142 4.297J = -158.843 Normal with Covariate p = 0.̂ Var = logL -2 log 37; a = 27.248; b = 0.278,; c = 10.815 0.006 0.210 -0.003 0.058~] 0.210 37.099 -0.826 5.583 -0.003 -0.826 0.023 -0.073 _ 0.058 5.583 -0.073 3.48lJ = -157.449 A = 2.787 53 Figure 4.1: Probability of Being Affected Under Stringent without FAD Criteria 0.25 -I P 30 40 50 60 70 80 90 100 110 120 Age ^ G a m m a """Lognormal ^Logist ic " N o r m a l 54 Figure 4.2: Probability of Being Affected Under Stringent with FAD Criteria (MM Family Included) 0.45  n Figure 4.3: Probability of Being Affected Under Stringent with FAD Criteria (MM Family Excluded) 0.25  n 55 Figure 4.5: Probability of Being Affected Under Relaxed Criteria (MM Family Excluded) 0.45  n 30 40 50 60 70 80 90 100 110 120 Age "•"Gamma ""Lognormal """Logistic " N o r m a l 56 Figure 4.6: Probability of Being Affected Under FAD Only Criteria (MM Family Included) Figure 4.7: Probability of Being Affected Under FAD Only Criteria (MM Family Excluded) 57 Figure 4.8: Probability of Being Affected Under Stringent without FAD Criteria with Life-Table Estimate 0.25 -, P 30 40 50 60 70 80 90 100 110 120 Age Gamma "•"Lognormal """Logistic " N o r m a l ~ Life Table Figure 4.9: Probability of Being Affected Under Relaxed Criteria (Effect of MM Family with Normal Age of Onset) 58 Figure 4.10: Probability of Being Affected Under Stringent with FAD Criteria (Effect of MM Family with Gamma Age of Onset) 0.45 -, With MM Family ^Without MM Family 59 Figure 4.11: Probability of Being Affected For Winokur Data Set 0.6  n 0 10 20 30 40 50 60 70 80 90 Age "Gamma """Lognormal ""Logistic " N o r m a l 60 5 SIMULATION STUDY 5.1 Background As the method of estimation discussed in Chapter 4 is maximum likelihood, it is known that the estimators are consistent and asymptotically normal when the correct class of distributions is chosen. But due to the complex structure of this mixture model, making statements about the rates of convergence of the estimators is difficult. Also, it is not clear what will happen when an incorrect class of distributions is chosen to fit the data. Monte- Carlo simulations can be used to address these questions. 5.2 Simulation Conditions There were four factors which were varied in this simulation study: the proportion of people susceptible, the size of the simulated data sets, the class of distribution functions for the age of onset, the mean and variances of the age of onset and censoring distribution. It was felt that these factors could have the greatest affect on the estimates. The choices for the factors are shown in Table 5.1. The one factor which was not varied was the use of a gamma distribution for the censoring process. It was felt that the mean and standard deviation, not the class of the censoring distribution, would be the more important factor. The mean, and to a lesser extent the standard deviation, of the censoring distribution should be chosen to be similar to the mean and standard deviation of the age of onset distribution. This property has been observed in the two data sets considered here and also appears to occur in Multiple Sclerosis. In particular, the choices should not imply most people will be censored before reaching their age of onset, which doesn't seem to occur in practice. This undesirable condition can happen when the mean of the censoring distribution is set too low. 61 Table 5.1: Parameters of the Simulation Study p Data Set Size 0.5 150, 500 0.25 150, 500 0.15 500 Age of Onset Censoring Mean Standard Deviation Mean Standard Deviation 80 10 65 20 55 10 65 20 35 10 35 10 Class of the Age of Onset Distributions: Logistic, Normal, Gamma, Lognormal. Class of the Censoring Distribution: Gamma Data Sets per configuration: 200. The random numbers required for the onset and censoring processes were generated using the parametrizations described in Chapter 4, where the parameters of each distribution were set to match the desired mean and standard deviations. However, in the gamma case, to match the assumption used in Chapter 4 that the shape parameter is an integer the following parametrization was used: mean (standard deviation) 2 where int[r] is the integer part of a real number r. Using this parametrization implies that the mean and standard deviation actually used for the gamma distribution are slightly smaller than the desired values when the nominal values for the mean are 55 and 35. The values for m = int / mean \ 2 (standard deviation] 62 m in these two cases are 30 and 12 instead of 30.25 and 12.25. The true values for the mean and standard deviation under the gamma case are: Nominal Mean True Mean True Standard Deviation 80 80 10 55 54.5455 9.9586 35 34.2857 9.8974 These small differences in the means and standard deviations shouldn't affect the conclusions. The possible configuration with p = 0.15 and 150 people in the data set was not considered in the simulations as some preliminary runs suggested that this was an unstable situation which would not be particularly informative. The problem appeared to be that not enough affected people were contained in these simulated data sets leading to divergence even when the correct distribution was being used for estimation. Each simulated data set was examined under the four age of onset distributions used for generating the data. Two forms of the gamma distribution were used in estimation; with and without the assumption that the shape parameter m is an integer. 5.3 Results Three parameters of the processes have been estimated for each configuration: the lifetime risk, and the mean and standard deviation of the age of onset. It was decided to investigate the mean and standard deviation as these can be compared across various distributions, whereas the natural parameters of the age of onset distributions cannot. In a few cases, the Newton-Raphson procedure did not converge. Sample averages (with standard errors) using the cases that converged for each of these three parameters under the 60 configurations are shown in Tables 5.2 to 5.13. The averages which differ from the true value by more than two standard errors, indicating possible bias, are in bold type. As a large number of comparisons are done (180 just to test for unbiasedness of the three parameters 63 under the correct model), some of these deviations could be due to random variation. Assuming that all the estimators were unbiased, using this two standard error rule would lead to about 5% of the cases appearing to be biased. The restricted and unrestricted gamma models appear to give almost the same estimates under all of the configurations considered. The major difference appears to be in the estimate of the shape parameter, with the restricted estimate set to the nearest integer of the unrestricted estimate in almost all cases. Because of this, only the properties under the unrestricted model will be discussed. The first parameter considered is the lifetime risk for disease; Irrespective of what the true class of the distribution is, it appears that the expected value of the lifetime risk will satisfy the relation XN. XN. XN. XN. E [p I logistic fit] < E[p I normal fit] < E[p I gamma fit] < E[p I lognormal fit]. This holds for all but six of the sixty configurations. In four cases the average under the logistic is larger than the average under the normal, and in two cases the average under the gamma is larger than the average under the lognormal. However, the differences are very small and could to be due to random variation. In general, it appears that when the correct class of age of onset distribution is chosen for estimation, the estimates appear to be approximately unbiased as only four out of the sixty (6.67%) averages differ significantly from the true value of p. In all four cases the difference appears to be small. The apparent unbiasedness is to be expected from the consistency of maximum likelihood estimates. However, when the incorrect distribution is chosen, biases in the estimates appear. The normal and logistic distributions appear to do fairly well when trying to approximate the other. This is not very surprising as the shapes of these distributions are quite similar; in particular both are symmetric about their means. Also both of these distributions do fairly well when trying to estimate in the gamma and lognormal settings. It appears that the maximum size of the bias is about 10%. The use of the gamma or lognormal distributions when the true distribution is either logistic or normal leads to positive and occasionally large 64 biases. In fact, when the gamma and lognormal models are used to estimate a logistic or normal situation with a mean age of onset of 35, the Newton-Raphson procedure won't converge and suggests that the maximum likelihood estimate in these cases is 1. For these cases, the true expected value of the estimator is probably higher than is shown in the tables. When the gamma and lognormal are used to estimate the other, the biases again appear to be small with the maximum size of the bias also about 10%. The largest biases seem to occur when a mean of 35 is chosen. This should not be surprising since the distributions are most dissimilar in this case. As the mean increases, the gamma and lognormal distributions become more symmetric and look more like the normal and logistic distributions. The expected values for the estimates of the mean age of onset appear to have a similar property to the expected values for the estimates of the lifetime risk. Regardless of the true distribution, it appears: E [meanllogistic fit] <, E[meanlnormal fit] < E[meanlgamma fit] < E[meanllognormal fit]. This relationship holds for all but four configurations, with the average under the logistic larger than the average under the normal in three cases, and the average under the gamma larger than the average under the lognormal in one case. Again the differences are small and could be due to random variation. When the correct class of distributions is used, the estimate of the mean also appears to be approximately unbiased, with the averages from only two of the sixty configurations differing from the true value by more than two standard errors. As the size of the apparent bias appears to be small, this could be due to random variation. As with the estimates of lifetime risk, choosing the incorrect distribution appears to lead to a biased estimate of the mean age of onset. The logistic and normal both appear to do fairly well in all cases, in particular when trying to estimate the other. Again the maximum bias appears to be less than 10%, with the size decreasing with increasing mean. The gamma and lognormal distribution do fairly well except for trying to estimate the logistic and 65 normal distribution when the mean age of onset is 35. This again is due, at least in part, to the convergence problems. For lifetime risk and mean age of onset estimates, there is a mild suggestion that bias is more likely when the number of relatives is 500 rather that 150. This could be due to the fact that the greater amount of data leading to much less variation in the estimates. As there should be approximately three to four times more affected people in the data sets with 500 relatives, less variation should be expected. The structure of the average values observed for the lifetime risk and the mean age of onset breaks down when the standard deviation is considered. Similar to before, independent of the true class of onset distributions: E[SDIlogistic fit] < E[SDIgamma fit] < E[SDIlognormal fit] and E[SDInormal fit] < E[SDIgamma fit] < E[SDIlognormal fit]. However E[SDIlogistic fit] < E[SDInormal fit] only seems to hold when the true age of onset distribution is logistic with a mean of 80 or 35. The opposite holds when the true distribution is normal, gamma, or lognormal, or when the true distribution is logistic with a mean of 55. As the size of the differences in the average estimate between the normal and logistic distributional assumptions when the true age of onset distribution is logistic with a mean of 55 are small, the reversal in ordering could be due to chance, but the consistent pattern seems to suggest otherwise. When the correct distribution is chosen, the estimate often appears to have a negative bias (18/60 = 30%). There was also one situation with an apparent positive bias. It appears bias is least likely when the true mean is 55 and most likely when the true mean is 80. Since P[affectedlmean = 80] < P[affectedlmean=35] < P[affectedlmean = 55] appears to hold, this suggests that the number affected in the data set determines the size of the bias. This may also explain why the lognormal (2/15) and gamma (3/15) distributions appear to have fewer bias problems than the logistic (5/15) and the normal (8/15). In this case the interaction between the age of onset and censoring distributions also appears to be involved, as it determines the number of affected people. 66 When the wrong distribution is chosen, a biased estimate appears in most situations. The maximum bias appears to be approximately 30%, which occurs when the mean age of onset is 35. As with the estimates for lifetime risk and mean age of onset, the values in the tables for the gamma and lognormal distributions are probably underestimated when the true age of onset distribution is logistic or normal with a mean of 35. For the classes of distributions chosen, an important factor in determining the bias of lifetime risk, mean and standard deviation of the age of onset distribution and the probability of the Newton-Raphson procedure converging appears to be the relative size of the left tails of the true and fitting distribution. These simulations suggest that the heavier the tail of the fitting distributions, the lower the estimate of lifetime risk and mean age of onset. However if the tail is too light, the lifetime risk estimate will be larger. Also the estimated age of onset distribution will shift to the right suggesting larger ages of onset. The importance of the size of the left tail agrees with the effect the MM family had on the estimates in Chapter 4. This family gives the true age of onset distribution for the sample a heavier left tail, leading to the expected shifts in the estimates under this hypothesis: These simulations suggest that choosing a distribution with a heavier left tail, such as the logistic, can lead to robustness against outliers with the possible cost of slightly underestimating the lifetime risk and the average age of onset. This finding is in disagreement with Risch's (1983) statement based on the Winokur data set that the estimate of the lifetime risk didn't particularly depend on the choice of age of onset distribution. However, Risch did make the very important point that one should try to characterize the choice of onset distribution as carefully as possible prior to analysis. 67 Table 5.2: Average of Estimates for p (Generated by Logistic) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 0.4945 (0.0081) 0.4992 (0.0084) 0.5060 (0.0087) 0.5193 (0.0091) 0.5 80 500 0.4981 (0.0038) 0.5058 (0.0039) 0.5252 (0.0046) 0.5391 (0.0050) 0.25 80 150 0.2581 (0.0060) 0.2590 (0.0062) 0.2731 (0.0071) 0.2746 (0.0074) 0.25 80 500 0.2525 (0.0037) 0.2561 (0.0039) 0.2656 (0.0042) 0.2739 (0.0047) 0.15 80 500 0.1479 (0.0027) 0.1511 (0.0028) 0.1596 (0.0039) 0.1659 (0.0049) 0.5 55 150 0.4997 (0.0043) 0.5003 (0.0043) 0.5140 (0.0048) 0.5252 (0.0052) 05 55 500 0.4995 (0.0021) 0.5005 (0.0022) 0.5129 (0.0026) 0.5236 (0.0030) 0.25 55 150 0.2465 (0.0036) 0.2472 (0.0036) 0.2529 (0.0041) 0.2601 (0.0054) 0.25 55 500 0.2520 (0.0018) 0.2525 (0.0018) 0.2578 (0.0020) 0.2654 (0.0023) 0.15 55 500 0.1501 (0.0015) 0.1502 (0.0015) 0.1536 (0.0017) 0.1581 (0.0018) 05 35 150 0.5047 (0.0066) 0.5206 (0.0072) 0.5933 (0.0112) 0.6474 (0.0156) 0.5 35 500 0.4987 (0.0033) 0.5159 (0.0036) 0.6759 (0.0117) 0.7696 (0.0141) 0.25 35 150 0.2580 (0.0059) 0.2666 (0.0064) 0.3354 (0.0127) 0.3508 (0.0131) 0.25 35 500 0.2504 (0.0029) 0.2596 (0.0032) 0.3620 (0.0114) 0.4809 (0.0182) 0.15 35 500 0.1517 (0.0020) 0.1575 (0.0023) 0.2308 (0.0103) 0.2946 (0.1573) 68 Table 5.3: Average of Estimates for p (Generated by Normal) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 0.5105 (0.0087) 0.5168 (0.0092) 0.5222 (0.0094) 0.5312 (0.0096) 0.5 80 500 0.4929 (0.0045) 0.4988 (0.0046) 0.5093 (0.0049) 0.5160 (0.0050) 0.25 80 150 0.2557 (0.0068) 0.2570 (0.0069) 0.2666 (0.0074) 0.2690 (0.0081) 0.25 80 500 0.2492 (0.0035) 0.2518 (0.0035) 0.2552 (0.0037) 0.2607 (0.0038) 0.15 80 500 0.1518 (0.0028) 0.1526 (0.0028) 0.1552 (0.0030) 0.1582 (0.0031) 05 55 150 0.5150 (0.0041) 0.5145 (0.0041) 0.5234 (0.0044) 0.5326 (0.0050) 0.5 55 500 0.4998 (0.0025) 0.4997 (0.0025) 0.5066 (0.0026) 0.5139 (0.0026) 0.25 55 150 0.2504 (0.0036) 0.2500 (0.0035) 0.2544 (0.0037) 0.2586 (0.0038) 0.25 55 500 0.2532 (0.0018) 0.2531 (0.0018) 0.2567 (0.0019) 0.2605 (0.0019) 0.15 55 500 0.1536 (0.0015) 0.1537 (0.0015) 0.1561 (0.0016) 0.1583 (0.0016) 0.5 35 150 0.4909 (0.0068) 0.5006 (0.0071) 0.5622 (0.0109) 0.6355 (0.0141) 0.5 35 500 0.4902 (0.0031) 0.5019 (0.0034) 0.6124 (0.0077) 0.7429 (0.0114) 0.25 35 150 0.2466 (0.0048) 0.2543 (0.0056) 0.3168 (0.0117) 0.3521 (0.0145) 0.25 35 500 0.2494 (0.0029) 0.2557 (0.0032) 0.3272 (0.0077) 0.4166 (0.0118) 0.15 35 500 0.1439 (0.0021) 0.1469 (0.0022) 0.1953 (0.0065) 0.2499 (0.0109) 69 Table 5.4: Average of Estimates for p (Generated by Gamma) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 0.4858 (0.0077) 0.4929 (0.0079) 0.4995 (0.0082) 0.5006 (0.0085) 0.5 80 500 0.4870 (0.0045) 0.4941 (0.0050) 0.5011 (0.0047) 0.5064 (0.0049) 0.25 80 150 0.2498 (0.0065) 0.2515 (0.0066) 0.2596 (0.0067) 0.2569 (0.0070) 0.25 80 500 0.2416 (0.0035) 0.2451 (0.0036) 0.2493 (0.0037) 0.2505 (0.0038) 0.15 80 500 0.1527 (0.0028) 0.1544 (0.0028) 0.1569 (0.0029) 0.1581 (0.0030) 05 55 150 0.4970 (0.0039) 0.4986 (0.0039) 0.5031 (0.0040) 0.5072 (0.0040) 05 55 500 0.4919 (0.0022) 0.4941 (0.0022) 0.4980 (0.0022) 0.5017 (0.0023) 0.25 55 150 0.2503 (0.0033) 0.2513 (0.0034) 0.2531 (0.0034) 0.2551 (0.0034) 0.25 55 500 0.2467 (0.0018) 0.2480 (0.0018) 0.2497 (0.0019) 0.2516 (0.0019) 0.15 55 500 0.1486 (0.0015) 0.1495 (0.0015) 0.1505 (0.0015) 0.1515 (0.0016) 05 35 150 0.4699 (0.0050) 0.4766 (0.0051) 0.5085 (0.0065) 0.5487 (0.0085) 0.5 35 500 0.4614 (0.0030) 0.4692 (0.0031) 0.4971 (0.0036) 0.5280 (0.0045) 0.25 35 150 0.2309 (0.0041) 0.2336 (0.0042) 0.2527 (0.0063) 0.2684 (0.0068) 0.25 35 500 0.2330 (0.0022) 0.2377 (0.0023) 0.2528 (0.0028) 0.2717 (0.0035) 0.15 35 500 0.1405 (0.0020) 0.1437 (0.0021) 0.1544 (0.0028) 0.1709 (0.0047) 70 Table 5.5: Average of Estimates for p (Generated by Lognormal) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 0.4921 (0.0084) 0.4941 (0.0080) 0.5013 (0.0084) 0.5059 (0.0086) 05 80 500 0.4763 (0.0040) 0.4844 (0.0041) 0.4891 (0.0041) 0.4930 (0.0042) 0.25 80 150 0.2421 (0.0070) 0.2445 (0.0071) 0.2567 (0.0074) 0.2493 (0.0075) 0.25 80 500 0.2469 (0.0033) 0.2505 (0.0034) 0.2530 (0.0035) 0.2550 (0.0035) 0.15 80 500 0.1483 (0.0026) 0.1513 (0.0027) 0.1519 (0.0028) 0.1540 (0.0029) 0.5 55 150 0.4844 (0.0039) 0.4875 (0.0039) 0.4912 (0.0040) 0.4929 (0.0040) 05 55 500 0.4915 (0.0023) 0.4950 (0.0023) 0.4980 (0.0023) 0.5005 (0.0023) 0.25 55 150 0.2493 (0.0037) 0.2505 (0.0037) 0.2532 (0.0037) 0.2538 (0.0038) 0.25 55 500 0.2451 (0.0017) 0.2474 (0.0017) 0.2480 (0.0018) 0.2499 (0.0017) 0.15 55 500 0.1500 (0.0014) 0.1512 (0.0014) 0.1520 (0.0014) 0.1527 (0.0015) 0.5 35 150 0.4596 (0.0059) 0.4697 (0.0062) 0.4929 (0.0071) 0.5124 (0.0082) 0.5 35 500 0.4566 (0.0027) 0.4674 (0.0029) 0.4855 (0.0032) 0.5050 (0.0036) 0.25 35 150 0.2349 (0.0045) 0.2396 (0.0046) 0.2517 (0.0054) 0.2664 (0.0066) 0.25 35 500 0.2267 (0.0023) 0.2318 (0.0024) 0.2409 (0.0026) 0.2513 (0.0030) 0.15 35 500 0.1379 (0.0020) 0.1406 (0.0021) 0.1464 (0.0025) 0.1541 (0.0029) 7 1 Table 5.6: Average of Estimates for the Mean Age of Onset (Generated by Logistic) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 79.624 (0.218) 79.880 (0.231) 80.634 (0.269) 81.464 (0.315) 0.5 80 500 79.879 (0.104) 80.328 (0.120) 81.518 (0.183) 82.490 (0.224) 0.25 80 150 79.690 (0.284) 79.793 (0.303) 80.775 (0.377) 81.857 (0.497) 0.25 80 500 79.999 (0.160) 80.408 (0.188) 81.523 (0.221) 82.635 (0.307) 0.15 80 500 79.935 (0.211) 80.518 (0.259) 81.935 (0.466) 83.461 (0.656) 0.5 55 150 55.103 (0.101) 55.106 (0.102) 56.149 (0.150) 57.269 (0.323) 0.5 55 500 54.950 (0.052) 54.986 (0.055) 55.910 (0.092) 56.826 (0.147) 0.25 55 150 54.884 (0.175) 54.963 (0.182) 55.918 (0.260) 57.184 (0.715) 0.25 55 500 55.019 (0.088) 55.064 (0.091) 55.952 (0.118) 57.080 (0.214) 0.15 55 500 54.932 (0.098) 54.923 (0.101) 55.872 (0.156) 56.975 (0.220) 0.5 35 150 34.902 (0.176) 35.436 (0.190) 39.457 (0.385) 43.636 (0.798) 0.5 35 500 34.990 (0.078) 35.637 (0.091) 43.185 (0.533) 49.081 (0.747) 0.25 35 150 34.813 (0.257) 35.371 (0.295) 41.219 (0.762) 45.289 (1.039) 0.25 35 500 34.877 (0.129) 35.539 (0.158) 44.367 (0.848) 56.974 (1.652) 0.15 35 500 35.019 (0.154) 35.699 (0.191) 45.355 (1.131) 58.143 (2.539) 72 Table 5.7: Average of Estimates for Mean Age of Onset (Generated by Normal) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 79.692 (0.214) 79.953 (0.226) 80.417 (0.241) 81.156 (0.287) 0.5 80 500 79.709 (0.118) 79.981 (0.120) 80.652 (0.136) 81.168 (0.147) 0.25 80 150 79.094 (0.320) 79.158 (0.328) 80.001 (0.386) 80.498 (0.462) 0.25 80 500 79.721 (0.167) 79.949 (0.171) 80.605 (0.192) 81.166 (0.213) 0.15 80 500 79.845 (0.217) 79.951 (0.223) 80.631 (0.256) 81.202 (0.276) 0.5 55 150 55.060 (0.109) 55.052 (0.107) 55.689 (0.130) 56.464 (0.224) 0.5 55 500 54.873 (0.060) 54.899 (0.058) 55.443 (0.061) 56.038 (0.074) 0.25 55 150 55.184 (0.169) 55.173 (0.167) 55.851 (0.196) 56.695 (0.324) 0.25 55 500 54.945 (0.093) 54.955 (0.092) 55.547 (0.106) 56.141 (0.120) 0.15 55 500 55.065 (0.125) 55.123 (0.122) 55.718 (0.145) 56.398 (0.176) 0.5 35 150 34.518 (0.172) 34.891 (0.186) 38.350 (0.359) 43.353 (0.657) 0.5 35 500 34.460 (0.087) 34.913 (0.095) 40.364 (0.317) 48.384 (0.617) 0.25 35 150 34.394 (0.251) 34.874 (0.290) 40.515 (0.773) 46.699 (1.618) 0.25 35 500 34.704 (0.139) 35.168 (0.153) 41.810 (0.596) 51.305 (0.987) 0.15 35 500 34.322 (0.171) 34.711 (0.182) 41.872 (0.745) 52.721 (1.901) 73 Table 5.8: Average of Estimates for Mean Age of Onset (Generated by Gamma) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 79.346 (0.212) 79.648 (0.217) 80.085 (0.234) 80.491 (0.252) 0.5 80 500 79.263 (0.106) 79.575 (0.111) 80.044 (0.120) 80.406 (0.128) 0.25 80 150 79.032 (0.329) 79.090 (0.326) 79.635 (0.347) 79.796 (0.371) 0.25 80 500 79.189 (0.166) 79.477 (0.170) 79.880 (0.181) 80.259 (0.193) 0.15 80 500 79.630 (0.228) 79.848 (0.225) 80.349 (0.242) 80.688 (0.260) 0.5 55 150 53.982 (0.118) 54.203 (0.115) 54.554 (0.122) 54.886 (0.130) 0.5 55 500 53.892 (0.060) 54.154 (0.060) 54.476 (0.062) 54.780 (0.066) 0.25 55 150 54.057 (0.152) 54.262 (0.155) 54.591 (0.166) 54.914 (0.180) 0.25 55 500 53.919 (0.094) 54.176 (0.095) 54.491 (0.099) 54.793 (0.105) 0.15 55 500 53.885 (0.121) 54.179 (0.121) 54.480 (0.127) 54.772 (0.135) 0.5 35 150 32.417 (0.142) 32.712 (0.145) 34.282 (0.210) 36.403 (0.339) 0.5 35 500 32.405 (0.074) 32.745 (0.077) 34.161 (0.107) 35.876 (0.154) 0.25 35 150 32.057 (0.202) 32.307 (0.202) 33.935 (0.339) 35.898 (0.499) 0.25 35 500 32.497 (0.111) 32.872 (0.119) 34.412 (0.161) 36.464 (0.241) 0.15 35 500 32.421 (0.147) 32.828 (0.158) 34.621 (0.242) 37.211 (0.488) 74 Table 5.9: Average of Estimates for Mean Age of Onset (Generated by Lognormal) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 79.312 (0.209) 79.481 (0.207) 79.834 (0.225) 80.198 (0.245) 0.5 80 500 78.950 (0.113) 79.322 (0.118) 79.670 (0.126) 79.941 (0.133) 0.25 80 150 78.587 (0.337) 78.729 (0.342) 79.408 (0.373) 79.356 (0.391) 0.25 80 500 79.088 (0.166) 79.367 (0.170) 79.736 (0.185) 80.020 (0.191) 0.15 80 500 78.918 (0.229) 79.294 (0.250) 79.456 (0.239) 79.942 (0.281) 0.5 55 150 54.002 (0.102) 54.342 (0.105) 54.605 (0.112) 54.805 (0.116) 0.5 55 500 54.228 (0.059) 54.604 (0.060) 54.852 (0.063) 55.073 (0.064) 0.25 55 150 54.411 (0.153) 54.641 (0.154) 54.959 (0.164) 55.195 (0.173) 0.25 55 500 54.198 (0.088) 54.602 (0.091) 54.832 (0.098) 55.070 (0.098) 0.15 55 500 54.218 (0.114) 54.567 (0.117) 54.811 (0.124) 55.048 (0.127) 0.5 35 150 32.959 (0.162) 33.372 (0.171) 34.448 (0.216) 35.586 (0.278) 0.5 35 500 32.722 (0.076) 33.173 (0.082) 34.134 (0.101) 35! 167 (0.127) 0.25 35 150 32.557 (0.189) 32.946 (0.196) 34.034 (0.261) 35.474 (0.383) 0.25 35 500 32.601 (0.105) 33.010 (0.110) 33.962 (0.138) 35.087 (0.180) 0.15 35 500 32.619 (0.140) 32.962 (0.145) 33.917 (0.190) 35.199 (0.257) 75 Table 5.10: Average of Estimates for the Standard Deviation of the Age of Onset (Generated by Logistic) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 9.564 (0.132) 9.736 (0.153) 10.633 (0.207) 11.617 (0.268) 0.5 80 500 9.835 (0.075) 10.193 (0.092) 11.522 (0.150) 12.619 (0.194) 0.25 80 150 9.196 (0.199) 9.249 (0.222) 10.388 (0.301) 11.510 (0.469) 0.25 80 500 9.751 (0.105) 10.062 (0.126) 11.325 (0.186) 12.503 (0.263) 0.15 80 500 9.565 (0.146) 9.927 (0.191) 11.263 (0.338) 12.750 (0.509) 0.5 55 150 9.892 (0.085) 9.779 (0.089) 11.294 (0.197) 12.742 (0.386) 0.5 55 500 9.989 (0.051) 9.883 (0.053) 11.321 (0.119) 12.649 (0.185) 0.25 55 150 9.878 (0.139) 9.642 (0.140) 10.902 (0.262) 12.612 (0.820) 0.25 55 500 10.003 (0.069) 9.879 (0.074) 11.206 (0.134) 12.775 (0.258) 0.15 55 500 9.984 (0.084) 9.862 (0.084) 11.259 (0.182) 12.771 (0.271) 0.5 35 150 9.826 (0.116) 9.919 (0.122) 13.834 (0.358) 18.916 (0.902) 0.5 35 500 9.952 (0.059) 10.125 (0.063) 16.747 (0.428) 23.941 (0.762) 0.25 35 150 9.567 (0.145) 9.639 (0.160) 14.696 (0.576) 20.486 (1.082) 0.25 35 500 9.856 (0.084) 10.049 (0.094) 17.528 (0.652) 32.297 (1.809) 0.15 35 500 9.891 (0.111) 10.063 (0.126) 17.821 (0.872) 33.896 (2.972) 76 Table 5.11: Average of Estimates for Standard Deviation of the Age of Onset (Generated by Normal) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 9.599 (0.128) 9.551 (0.137) 10.245 (0.168) 11.075 (0.225) 0.5 80 500 9.845 (0.070) 9.787 (0.071) 10.632 (0.093) 11.321 (0.111) 0.25 80 150 8.857 (0.192) 8.690 (0.197) 9.663 (0.252) 10.185 (0.334) 0.25 80 500 9.729 (0.101) 9.653 (0.103) 10.480 (0.132) 11.200 (0.160) 0.15 80 500 9.600 (0.123) 9.497 (0.123) 10.308 (0.164) 11.058 (0.196) 0.5 55 150 10.303 (0.089) 9.859 (0.084) 10.859 (0.134) 11.951 (0.265) 0.5 55 500 10.404 (0.046) 9.963 (0.041) 10.860 (0.056) 11.784 (0.079) 0.25 55 150 10.227 (0.131) 9.791 (0.124) 10.790 (0.182) 11.987 (0.365) 0.25 55 500 10.293 (0.066) 9.883 (0.063) 10.804 (0.089) 11.744 (0.117) 0.15 55 500 10.370 (0.090) 9.935 (0.087) 10.826 (0.125) 11.864 (0.179) 0.5 35 150 9.967 (0.111) 9.753 (0.114) 13.190 (0.276) 19.336 (0.720) 0.5 35 500 10.137 (0.056) 9.956 (0.057) 15.080 (0.264) 24.312 (0.677) 0.25 35 150 9.712 (0.141) 9.612 (0.156) 14.754 (0.589) 23.248 (1.963) 0.25 35 500 10.088 (0.087) 9.933 (0.090) 15.824 (0.454) 26.619 (0.970) 0.15 35 500 9.952 (0.109) 9.759 (0.110) 15.934 (0.573) 29.452 (2.358) 77 Table 5.12: Average of Estimates for Standard Deviation of the Age of Onset (Generated by Gamma) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 9.198 (0.121) 9.049 (0.122) 9.677 (0.147) 10.176 (0.170) 0.5 80 500 9.445 (0.067) 9.316 (0.068) 9.979 (0.081) 10.472 (0.094) 0.25 80 150 8.673 (0.179) 8.349 (0.172) 9.031 (0.201) 9.308 (0.234) 0.25 80 500 9.217 (0.098) 9.087 (0.095) 9.698 (0.113) 10.187 (0.133) 0.15 80 500 9.399 (0.126) 9.205 (0.123) 9.882 (0.148) 10.366 (0.170) 0.5 55 150 9.865 (0.086) 9.375 (0.079) 9.921 (0.093) 10.479 (0.111) 0.5 55 500 9.878 (0.042) 9.444 (0.039) 9.965 (0.045) 10.499 (0.053) 0.25 55 150 9.656 (0.116) 9.175 (0.113) 9.701 (0.132) 10.245 (0.159) 0.25 55 500 9.755 (0.063) 9.318 (0.058) 9.832 (0.068) 10.356 (0.080) 0.15 55 500 9.742 (0.088) 9.304 (0.081) 9.792 (0.094) 10.302 (0.110) 0.5 35 150 8.471 (0.090) 8.097 (0.084) 9.808 (0.153) 12.331 (0.302) 0.5 35 500 8.471 (0.049) 8.111 (0.047) 9.690 (0.079) 11.795 (0.137) 0.25 35 150 8.220 (0.123) 7.796 (0.118) 9.470 (0.232) 11.911 (0.458) 0.25 35 500 8.584 (0.068) 8.223 (0.066) 9.920 (0.114) 12.364 (0.212) 0.15 35 500 8.577 (0.083) 8.242 (0.085) 10.134 (0.162) 13.139 (0.433) 78 Table 5.13: Average of Estimates for the Standard Deviation of the Age of Onset (Generated by Lognormal) p mean Relatives Logistic Normal Gamma Lognormal 0.5 80 150 8.947 (0.135) 8.732 (0.131) 9.244 (0.154) 9.715 (0.180) 0.5 80 500 9.117 (0.072) 8.982 (0.071) 9.515 (0.083) 9.911 (0.093) 0.25 80 150 8.240 (0.202) 7.960 (0.199) 8.764 (0.231) 8.838 (0.265) 0.25 80 500 9.072 (0.098) 8.908 (0.096) 9.454 (0.115) 9.877 (0.127) 0.15 80 500 8.974 (0.118) 8.829 (0.123) 9.282 (0.134) 9.786 (0.165) 0.5 55 150 9.320 (0.082) 8.932 (0.078) 9.339 (0.089) 9.724 (0.100) 0.5 55 500 9.638 (0.044) 9.220 (0.041) 9.596 (0.045) 10.015 (0.051) 0.25 55 150 9.262 (0.115) 8.824 (0.107) 9.305 (0.125) 9.745 (0.146) 0.25 55 500 9.579 (0.066) 9.190 (0.063) 9.575 (0.071) 9.994 (0.077) 0.15 55 500 9.539 (0.082) 9.104 (0.078) 9.492 (0.084) 9.932 (0.100) 0.5 35 150 7.899 (0.094) 7.596 (0.094) 8.798 (0.139) 10.235 (0.210) 0.5 35 500 7.950 (0.048) 7.646 (0.048) 8.748 (0.070) 10.073 (0.103) 0.25 35 150 7.698 (0.120) 7.395 (0.117) 8.591 (0.183) 10.298 (0.322) 0.25 35 500 7.884 (0.071) 7.566 (0.067) 8.678 (0.099) 10.080 (0.150) 0.15 35 500 7.715 (0.086) 7.390 (0.083) 8.507 (0.131) 10.025 (0.205) 79 6 CONCLUSIONS 6.1 Risks for Alzheimer's and Their Implications The three general procedures of estimation all suggest that the lifetime risk for disease does not approach 50%. In particular the risk of dementia by age 90 appears to be approximately only 25%, much lower than the 50% risk found in other recent studies. Three possibilities for the differences between this data set and others come to mind. The stringent criterion with its requirement of existence of medical records appears to be much stronger than the criteria used in the other studies mentioned. The relaxed criteria still may be more restrictive than that used by other studies. In the product-limit setting, Breitner and Magruder-Habib (1989) showed that varying the rule for deciding age of onset could change risk estimates. As the age-specific risk estimates from the full maximum likelihood procedure appear to be close to the product-limit estimates, changing the rule determining the age of onset should also affect the full maximum likelihood estimates. Possibly the age of onset has been determined differently in some of the other studies. Finally, as the other groups ascertain their index cases differently, the populations being sampled may be different. As the other studies were conducted in the United States, one factor which could affect sampling is the universal medical insurance program available in Canada. Also the methods of ascertainment used by other groups may cause more families with the genetic form of the disease to be included in the sample. 6.2 Comparisons of the Estimation Methods Three types of estimation procedures for calculating risks for disease have been discussed. The product-limit method gives a very easy and quick way to estimate age- specific risks. The Kaplan-Meier and life-table estimators appear to be approximately unbiased, while the Weinberg estimator appears to have a positive bias, suggesting that it shouldn't be used. The one drawback to these three estimation procedures is that it is difficult to estimate the lifetime risk for disease without making possibly unreasonable 80 assumptions. The estimators for lifetime risk using fixed approximations to the age of onset distributions, while easy to calculate, do not appear to be very useful. It appears that they can be strongly influenced by the choice for the age of onset distribution, with little robustness when a poor choice is made. Also, one estimator, the modified Stromgren, will almost always be biased, even when the correct age of onset distribution is chosen. The maximum likelihood procedure for estimating the lifetime risk and the age of onset distribution appears to be the most useful. Since the age of onset distribution is estimated along with the lifetime risk, the lifetime risk estimate should have a smaller bias than the fixed onset distribution estimators, though poor choices for the class of the age of onset distributions could still lead to biased estimates. However, the age-specific risks calculated by this method appear to be very close to those calculated by Kaplan-Meier or the life-table estimators, irrespective of the choice of the class of the age of onset distributions. Our simulation study seems to support the usefulness of this type of estimator when intelligent choices are made about which classes of distributions to use to estimate the age of onset. 81 BIBLIOGRAPHY 1 Anscombe, F.J. (1964) Normal Likelihood Functions. Ann. Inst. Stat. Math (Tokyo), 16:1-19. 2 Armenian, H.K., Khoury, MJ. (1981) Age at Onset of Genetic Diseases: an Application for Sartwell's Model of the Distribution of Incubation Periods. Am. J. 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Biometrics, 39:929-939. 26 Sadovnick, A.D., Baird, P.A. (1988) The Familial Nature of Multiple Sclerosis: Age- corrected Empiric Recurrence Risks for Parents and Siblings of Patients. Neurology, 38:990-991. 27 Sadovnick, A.D., Irwin, M.E., Baird, P.A., et al. (1989) Genetic Studies on an Alzheimer Clinic Population. Genet. Epidemiol. (In Press). 28 Sadovnick, A.D., Tuokko, H., Horton, et al. (1988) Familial Alzheimer's Disease. Can. J. Neurol. Sci., 15:142-146. 29 St. George-Hyslop, P.H., Tanzi, R.E., Polinsky, RJ., et al. (1987) The Genetic Defect Causing Familial Alzheimer's Disease Maps on Chromosome 21. Science, 235:885- 890. 30 Sartwell, P.E., The Distribution of Incubation Periods of Infectious Disease. (1950) Am. J. Publ. Health, 51:310-318. 31 Schellenberg, G.D., Bird, T.D., Wijsman, E.M., et al. (1988) Absence of Linkage of Chromosome 21q21 Markers to Familial Alzheimer's Disease. Science, 241:1507- 1510. 32 Schulz, B. 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