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1.
Mol Psychiatry ; 18(3): 340-6, 2013 Mar.
Article in English | MEDLINE | ID: mdl-22212596

ABSTRACT

We conducted a systematic study of top susceptibility variants from a genome-wide association (GWA) study of bipolar disorder to gain insight into the functional consequences of genetic variation influencing disease risk. We report here the results of experiments to explore the effects of these susceptibility variants on DNA methylation and mRNA expression in human cerebellum samples. Among the top susceptibility variants, we identified an enrichment of cis regulatory loci on mRNA expression (eQTLs), and a significant excess of quantitative trait loci for DNA CpG methylation, hereafter referred to as methylation quantitative trait loci (mQTLs). Bipolar disorder susceptibility variants that cis regulate both cerebellar expression and methylation of the same gene are a very small proportion of bipolar disorder susceptibility variants. This finding suggests that mQTLs and eQTLs provide orthogonal ways of functionally annotating genetic variation within the context of studies of pathophysiology in brain. No lymphocyte mQTL enrichment was found, suggesting that mQTL enrichment was specific to the cerebellum, in contrast to eQTLs. Separately, we found that using mQTL information to restrict the number of single-nucleotide polymorphisms studied enhances our ability to detect a significant association. With this restriction a priori informed by the observed functional enrichment, we identified a significant association (rs12618769, P(bonferroni)<0.05) from two other GWA studies (TGen+GAIN; 2191 cases and 1434 controls) of bipolar disorder, which we replicated in an independent GWA study (WTCCC). Collectively, our findings highlight the importance of integrating functional annotation of genetic variants for gene expression and DNA methylation to advance the biological understanding of bipolar disorder.


Subject(s)
Bipolar Disorder/genetics , DNA Methylation/genetics , Gene Expression Regulation/genetics , Genetic Predisposition to Disease/genetics , Quantitative Trait Loci/genetics , Cerebellum/metabolism , Genome-Wide Association Study , Humans , Methylation , Polymorphism, Single Nucleotide/genetics
2.
Mol Psychiatry ; 18(11): 1218-24, 2013 Nov.
Article in English | MEDLINE | ID: mdl-23089632

ABSTRACT

Several studies have identified genes associated with alcohol-use disorders (AUDs), but the variation in each of these genes explains only a small portion of the genetic vulnerability. The goal of the present study was to perform a genome-wide association study (GWAS) in extended families from the Collaborative Study on the Genetics of Alcoholism to identify novel genes affecting risk for alcohol dependence (AD). To maximize the power of the extended family design, we used a quantitative endophenotype, measured in all individuals: number of alcohol-dependence symptoms endorsed (symptom count (SC)). Secondary analyses were performed to determine if the single nucleotide polymorphisms (SNPs) associated with SC were also associated with the dichotomous phenotype, DSM-IV AD. This family-based GWAS identified SNPs in C15orf53 that are strongly associated with DSM-IV alcohol-dependence symptom counts (P=4.5 × 10(-8), inflation-corrected P=9.4 × 10(-7)). Results with DSM-IV AD in the regions of interest support our findings with SC, although the associations were less significant. Attempted replications of the most promising association results were conducted in two independent samples: nonoverlapping subjects from the Study of Addiction: Genes and Environment (SAGE) and the Australian Twin Family Study of AUDs (OZALC). Nominal association of C15orf53 with SC was observed in SAGE. The variant that showed strongest association with SC, rs12912251 and its highly correlated variants (D'=1, r(2) 0.95), have previously been associated with risk for bipolar disorder.


Subject(s)
Alcoholism/genetics , Chromosomes, Human, Pair 15/genetics , Genome-Wide Association Study , Open Reading Frames/genetics , Symptom Assessment , Alcoholism/diagnosis , Diagnostic and Statistical Manual of Mental Disorders , Endophenotypes , Female , Genetic Predisposition to Disease/genetics , Genotype , Humans , Male , Pedigree , Polymorphism, Single Nucleotide
3.
J Dent Res ; 90(10): 1202-5, 2011 Oct.
Article in English | MEDLINE | ID: mdl-21810622

ABSTRACT

The role played by genetic components in the etiology of the Class III phenotype, a class of dental malocclusion, is not yet understood. Regions that may be related to the development of Class III malocclusion have been suggested previously. The aim of this study was to search for genetic linkage with 6 microsatellite markers (D1S234, D4S3038, D6S1689, D7S503, D10S1483, and D19S566), near previously proposed candidate regions for Class III. We performed a two-point parametric linkage analysis for 42 affected individuals from 10 Brazilian families with a positive Class III malocclusion segregation. Analysis of our data indicated that there was no evidence for linkage of any of the 6 microsatellite markers to a Class III locus at = zero, with data supporting exclusion for 5 of the 6 markers evaluated. The present work reinforces that Class III is likely to demonstrate locus heterogeneity, and there is a dependency of the genetic background of the population in linkage studies.


Subject(s)
Malocclusion, Angle Class III/genetics , Prognathism/genetics , Brazil , Genes, Dominant , Genetic Heterogeneity , Genetic Linkage , Genetic Loci , Mandible/abnormalities , Microsatellite Repeats , Pedigree
4.
Am J Med Genet B Neuropsychiatr Genet ; 153B(4): 850-77, 2010 Jun 05.
Article in English | MEDLINE | ID: mdl-20468069

ABSTRACT

We previously proposed and provided proof of principle for the use of a complementary approach, convergent functional genomics (CFG), combining gene expression and genetic data, from human and animal model studies, as a way of mining the existing GWAS datasets for signals that are there already, but did not reach significance using a genetics-only approach [Le-Niculescu et al., 2009b]. CFG provides a fit-to-disease prioritization of genes that leads to generalizability in independent cohorts, and counterbalances the fit-to-cohort prioritization inherent in classic genetic-only approaches, which have been plagued by poor reproducibility across cohorts. We have now extended our previous work to include more datasets of GWAS, and more recent evidence from other lines of work. In essence our analysis is the most comprehensive integration of genetics and functional genomics to date in the field of bipolar disorder. Biological pathway analyses identified top canonical pathways, and epistatic interaction testing inside these pathways has identified genes that merit future follow-up as direct interactors (intra-pathway epistasis, INPEP). Moreover, we have put together a panel of best P-value single nucleotide polymorphisms (SNPs), based on the top candidate genes we identified. We have developed a genetic risk prediction score (GRPS) based on our panel, and demonstrate how in two independent test cohorts the GRPS differentiates between subjects with bipolar disorder and normal controls, in both European-American and African-American populations. Lastly, we describe a prototype of how such testing could be used to categorize disease risk in individuals and aid personalized medicine approaches, in psychiatry and beyond.


Subject(s)
Bipolar Disorder/genetics , Genomics/methods , Gene Expression , Genes , Humans , Polymorphism, Single Nucleotide , Precision Medicine , Risk Factors , Signal Transduction/genetics
5.
Mol Psychiatry ; 14(8): 755-63, 2009 Aug.
Article in English | MEDLINE | ID: mdl-19488044

ABSTRACT

To identify bipolar disorder (BD) genetic susceptibility factors, we conducted two genome-wide association (GWA) studies: one involving a sample of individuals of European ancestry (EA; n=1001 cases; n=1033 controls), and one involving a sample of individuals of African ancestry (AA; n=345 cases; n=670 controls). For the EA sample, single-nucleotide polymorphisms (SNPs) with the strongest statistical evidence for association included rs5907577 in an intergenic region at Xq27.1 (P=1.6 x 10(-6)) and rs10193871 in NAP5 at 2q21.2 (P=9.8 x 10(-6)). For the AA sample, SNPs with the strongest statistical evidence for association included rs2111504 in DPY19L3 at 19q13.11 (P=1.5 x 10(-6)) and rs2769605 in NTRK2 at 9q21.33 (P=4.5 x 10(-5)). We also investigated whether we could provide support for three regions previously associated with BD, and we showed that the ANK3 region replicates in our sample, along with some support for C15Orf53; other evidence implicates BD candidate genes such as SLITRK2. We also tested the hypothesis that BD susceptibility variants exhibit genetic background-dependent effects. SNPs with the strongest statistical evidence for genetic background effects included rs11208285 in ROR1 at 1p31.3 (P=1.4 x 10(-6)), rs4657247 in RGS5 at 1q23.3 (P=4.1 x 10(-6)), and rs7078071 in BTBD16 at 10q26.13 (P=4.5 x 10(-6)). This study is the first to conduct GWA of BD in individuals of AA and suggests that genetic variations that contribute to BD may vary as a function of ancestry.


Subject(s)
Bipolar Disorder/genetics , Black or African American/genetics , Genetic Predisposition to Disease/genetics , Genome-Wide Association Study , Adolescent , Adult , Bipolar Disorder/ethnology , Case-Control Studies , Cohort Studies , Female , Genome, Human , Haplotypes , Humans , Male , Middle Aged , Polymorphism, Single Nucleotide , Reference Values , White People , Young Adult
6.
Bone ; 39(1): 93-9, 2006 Jul.
Article in English | MEDLINE | ID: mdl-16461031

ABSTRACT

Risk factors for osteoporotic hip fracture include reduced bone mineral density and poor structure of the femoral neck, both of which are heritable traits. Previously, we showed that despite similar body size, Fischer 344 (F344) rats have significantly different skeletal traits compared with Lewis (LEW) rats. To identify a gene or genes regulating fracture risk at the femoral neck, we mapped quantitative trait loci (QTL) for femoral neck density and structure phenotypes using a 595 F2 progeny derived from the inbred F344 and LEW strains of rats. Femoral neck phenotypes included volumetric bone mineral density (vBMD), neck width, femoral neck cross-sectional area and polar moment of inertia (Ip). A 20-cM genome-wide scan was performed using 118 microsatellite markers and linkage analysis was conducted to identify chromosomal regions harbor QTL for femoral neck phenotypes. Strong evidence of linkage (P<0.01) to femoral neck vBMD was observed on chromosomes (Chrs) 1, 2, 4, 5, 7, 10 and 15. QTL affecting femoral neck structure and biomechanical properties were detected only on Chr 4 where the F344 alleles were shown to improve femoral neck structure, whereas these alleles had no effect on bone measurements at the lumbar spine and only modest effects at the femoral midshaft. In contrast, QTL on Chrs 1, 2 and 10 affected multiple skeletal sites. Several QTL regions in this study are homologous to human chromosomal regions, where linkage to femoral neck and related phenotypes has been reported previously. These findings represent an important first step in localizing and identifying genes that influence hip fragility.


Subject(s)
Bone Density , Chromosomes, Mammalian , Femur Neck/pathology , Quantitative Trait Loci , Animals , Biomechanical Phenomena , Chromosome Mapping , Crosses, Genetic , Female , Genetic Linkage , Genetic Markers , Rats , Rats, Inbred F344 , Rats, Inbred Lew , Tomography, X-Ray Computed
7.
Osteoporos Int ; 17(4): 587-92, 2006.
Article in English | MEDLINE | ID: mdl-16432645

ABSTRACT

INTRODUCTION: Peak bone mineral density (BMD) achieved during adulthood is a major determinant of osteoporotic fracture in later life. Although environmental factors affect peak BMD, it is a highly heritable trait. Recently, bone morphogenetic protein 2 (BMP2) was reported as a susceptibility gene for osteoporotic fractures and low BMD in Icelandic and Danish populations. METHODS: To determine whether polymorphisms in the BMP2 gene contribute to BMD variation in our population of healthy American whites, we tested seven single nucleotide polymorphisms (SNPs), four of which were associated with osteoporotic phenotypes in the previous study. BMD at the femoral neck and lumbar spine (L2-L4) were measured by dual energy X-ray absorptiometry (DXA) in 411 men (age 18-61) and 1,291 pre-menopausal women (age 20-50). SNP genotypes/haplotypes were tested for population-based association with BMD using analysis of variance. RESULTS: None of the polymorphisms tested reached statistical significance (all p values >0.05) for BMD at the femoral neck or lumbar spine in either gender. Two of the SNP haplotypes spanning the entire BMP2 gene were marginally associated with BMD in men (p values=0.019-0.043). However, these haplotypes would account for only a small, if any, portion of BMD variation and would not be significant after adjustment for multiple comparisons. CONCLUSIONS: These results demonstrate that genetic variations in BMP2 do not substantially contribute to BMD variation in our population of healthy American whites.


Subject(s)
Bone Density/genetics , Bone Morphogenetic Proteins/genetics , Polymorphism, Single Nucleotide/genetics , Transforming Growth Factor beta/genetics , Absorptiometry, Photon , Adolescent , Adult , Bone Morphogenetic Protein 2 , Female , Femur Neck/diagnostic imaging , Humans , Lumbar Vertebrae/diagnostic imaging , Male , Middle Aged , United States , White People
8.
J Bone Miner Res ; 18(6): 1057-65, 2003 Jun.
Article in English | MEDLINE | ID: mdl-12817759

ABSTRACT

Risk for osteoporotic fracture is determined in part by femoral structure, which is under genetic control. We conducted a genome scan in 638 sister-pairs for structure phenotypes. Significant evidence of linkage was detected with several chromosomal regions, including confirmation of our prior linkage findings. Bone strength and resistance to fracture at the proximal femur is determined in part by structural variables. We previously reported that several structural variables, including pelvic axis length, femur axis length, femur head width, and femur midshaft width, had significant or suggestive linkage to regions of chromosomes 3, 4, 5, 7, 9, 17, and 19 in a sample of 309 white premenopausal sister pairs. We now report the results of a genome-wide linkage analysis of femoral structure variables in 437 white and 201 black healthy premenopausal sister pairs, of which 191 white pairs overlapped with our previously published sample. Multipoint quantitative linkage analysis was performed using microsatellite markers genotyped throughout the genome. In the current sample, linkage of femoral structure to chromosomes 3, 7, and 19 was confirmed in the white sister pairs, and a new linkage to chromosome 8 was identified. There was linkage at chromosome 3 to femoral head width (logarithm of the odds [LOD] = 5.0) and femur shaft width (LOD = 3.6). On chromosome 19, there was linkage to femoral neck axis length (LOD = 3.2); on chromosome 7, to femoral head width (LOD = 5.0); and on chromosome 8, to femoral head width (LOD = 6.0). The current findings emphasize the importance of increasing sample size to replicate linkage findings and identify new regions of linkage.


Subject(s)
Chromosomes, Human, Pair 19 , Chromosomes, Human, Pair 3 , Chromosomes, Human, Pair 7 , Chromosomes, Human, Pair 8 , Femur/anatomy & histology , Adult , Chromosome Mapping , Female , Femur Head/anatomy & histology , Femur Head/diagnostic imaging , Femur Neck/anatomy & histology , Genetic Markers , Humans , Indiana , Lod Score , Middle Aged , Phenotype , Postmenopause , Radiography , Siblings
9.
J Bone Miner Res ; 16(6): 985-91, 2001 Jun.
Article in English | MEDLINE | ID: mdl-11393795

ABSTRACT

Femoral structure contributes to bone strength at the proximal femur and predicts hip fracture risk independently of bone mass. Quantitative components of femoral structure are highly heritable traits. To identify genetic loci underlying variation in these structural phenotypes, we conducted an autosomal genome screen in 309 white sister pairs. Seven structural variables were measured from femoral radiographs and used in multipoint sib-pair linkage analyses. Three chromosomal regions were identified with significant evidence of linkage (log10 of the odds ratio [LOD] > 3.6) to at least one femoral structure phenotype. The maximum LOD score of 4.3 was obtained for femur neck axis length on chromosome 5q. Evidence of linkage to chromosome 4q was found with both femur neck axis length (LOD = 3.9) and midfemur width (LOD = 3.5). Significant evidence of linkage also was found to chromosome 17q, with a LOD score of 3.6 for femur head width. Two additional chromosomal regions 3q and 19p gave suggestive (LOD > 2.2) evidence of linkage with at least two of the structure phenotypes. Chromosome 3 showed evidence of linkage with pelvic axis length (LOD = 3.1), midfemur width (LOD = 2.8), and femur head width (LOD = 2.3), spanning a broad (60 cm) region of chromosome 3q. Linkage to chromosome 19 was supported by two phenotypes, femur neck axis length (LOD = 2.8) and femur head width (LOD = 2.8). This study is the first genome screen for loci underlying variation in femoral structure and represents an important step toward identifying genes contributing to the risk of osteoporotic hip fracture in the general population.


Subject(s)
Femur/anatomy & histology , Femur/physiology , Genetic Linkage , Genetic Variation , Adult , Female , Femur/diagnostic imaging , Genome, Human , Humans , Middle Aged , Pedigree , Polymorphism, Genetic , Premenopause , Radiography
10.
Genet Epidemiol ; 21 Suppl 1: S528-33, 2001.
Article in English | MEDLINE | ID: mdl-11793731

ABSTRACT

A two-step process was used to find loci contributing to the qualitative disease phenotype in the Genetic Analysis Workshop (GAW) 12 simulated data. The first step used parametric linkage analysis with a limited number of dominant and recessive models to detect linkage to chromosomal regions. Subsequently, a subset of the simulated biallelic sequence polymorphisms was used for transmission/disequilibrium tests and to build haplotypes to fine map the disease-predisposing polymorphism(s). A haplotype, strongly associated with the disease phenotype whose proximal end was within 39 base pairs of the functional allele for simulated major gene 6, was identified in the isolated population.


Subject(s)
Chromosome Mapping/statistics & numerical data , Genetic Predisposition to Disease/genetics , Linkage Disequilibrium/genetics , Phenotype , Alleles , Genetics, Population , Haplotypes/genetics , Humans , Lod Score , Penetrance , Polymorphism, Single Nucleotide/genetics
11.
Genet Epidemiol ; 21 Suppl 1: S732-7, 2001.
Article in English | MEDLINE | ID: mdl-11793770

ABSTRACT

Several approaches were taken to identify the loci contributing to the quantitative and qualitative phenotypes in the Genetic Analysis Workshop 12 simulated data set. To identify possible quantitative trait loci (QTL), the quantitative traits were analyzed using SOLAR. The four replicates identified as the "best replicates" by the simulators, 42, 25, 33, and 38, were analyzed separately. Each of the five quantitative phenotypes was analyzed individually in the four replicates. To increase the power to detect QTL with pleiotropic effects, principal component analysis was performed and one new multivariate phenotype was estimated. In each instance, after performing a 10-cM genome screen, fine mapping was completed in the initially identified linked regions to further evaluate the evidence for linkage. This approach of initially performing a coarse marker screen followed by analyses using much higher marker density successfully identified all the QTL playing a role in the quantitative phenotypes. The principal component phenotype did not substantially improve the power of QTL detection or localization. A neural network approach was utilized to identify loci contributing to disease status. The neural network technique identified the strongest gene influencing disease status as well as a locus contributing to quantitative traits 3 and 4; however, the inputs that contributed the greatest information were markers not in QTL regions.


Subject(s)
Chromosome Mapping/statistics & numerical data , Genetic Markers/genetics , Genetic Predisposition to Disease/genetics , Models, Genetic , Neural Networks, Computer , Quantitative Trait, Heritable , Artificial Intelligence , Genetic Testing , Humans , Lod Score , Phenotype , Principal Component Analysis , Risk Factors
12.
J Clin Endocrinol Metab ; 85(9): 3116-20, 2000 Sep.
Article in English | MEDLINE | ID: mdl-10999795

ABSTRACT

A major determinant of the risk for osteoporosis is peak bone mineral density (BMD), which is largely determined by genetic factors. We recently reported linkage of peak BMD in a large sample of healthy sister pairs to chromosome 11q12-13. To identify additional loci underlying normal variations in peak BMD, we conducted an autosomal genome screen in 429 Caucasian sister pairs. Multipoint LOD scores were computed for BMD at four skeletal sites. Chromosomal regions with LOD scores above 1.85 were further pursued in an expanded sample of 595 sister pairs (464 Caucasians and 131 African-Americans). The highest LOD score attained in the expanded sample was 3.86 at chromosome 1q21-23 with lumbar spine BMD. Chromosome 5q33-35 gave a LOD score of 2.23 with femoral neck BMD. At chromosome 6p11-12, the 464 Caucasian pairs achieved a LOD score of 2.13 with lumbar spine BMD. Markers within the 11q12-13 region continued to support linkage to femoral neck BMD, although the peak LOD score was decreased to 2.16 in the sample of 595 sibling pairs. Our study is the largest genome screen to date for genes underlying variations in peak BMD and represents an important step toward identifying genes contributing to osteoporosis in the general population.


Subject(s)
Bone Density/genetics , Genetic Linkage/genetics , Osteoporosis/genetics , Adult , Black People , Chromosomes/genetics , Female , Genetic Testing , Genome , Genotype , Humans , Nuclear Family , Reference Values , White People
13.
Alcohol Clin Exp Res ; 24(7): 933-45, 2000 Jul.
Article in English | MEDLINE | ID: mdl-10923994

ABSTRACT

BACKGROUND: There is substantial evidence for a significant genetic component to the risk for alcoholism. A previous study reported linkage to chromosomes 1, 2, and 7 in a large data set that consisted of 105 families, each with at least three alcoholic members. METHODS: Additional genotyping in the 105 families has been completed in the chromosomal regions identified in the initial analyses, and a replication sample of 157 alcoholic families ascertained under identical criteria has been genotyped. Two hierarchical definitions of alcoholism were employed in the linkage analyses: (1) Individuals who met both Feighner and DSM-III-R criteria for alcohol dependence represented a broad definition of disease; and (2) individuals who met ICD-10 criteria for alcoholism were considered affected under a more severe definition of disease. RESULTS: Genetic analyses of affected sibling pairs supported linkage to chromosome 1 (LOD = 1.6) in the replication data set as well as in a combined analysis of the two samples (LOD = 2.6). Evidence of linkage to chromosome 7 increased in the combined data (LOD = 2.9). The LOD score on chromosome 2 in the initial data set increased after genotyping of additional markers; however, combined analyses of the two data sets resulted in overall lower LOD scores (LOD = 1.8) on chromosome 2. A new finding of linkage to chromosome 3 was identified in the replication data set (LOD = 3.4). CONCLUSIONS: Analyses of a second large sample of alcoholic families provided further evidence of genetic susceptibility loci on chromosomes 1 and 7. Genetic analyses also have identified susceptibility loci on chromosomes 2 and 3 that may act only in one of the two data sets.


Subject(s)
Alcoholism/genetics , Chromosome Mapping , Chromosomes, Human, Pair 2/genetics , Chromosomes, Human, Pair 3/genetics , Chromosomes, Human, Pair 7/genetics , Genetic Predisposition to Disease , Humans , Pedigree
14.
Bone ; 27(1): 169-73, 2000 Jul.
Article in English | MEDLINE | ID: mdl-10865225

ABSTRACT

A major determinant of the risk for osteoporosis in later life is bone mineral density (BMD) attained during early adulthood. Bone mineral density is a complex trait that, presumably, is influenced by multiple genes. Interleukin-6 (IL-6) is an attractive candidate gene for osteoporosis susceptibility, because it has effects on bone cells and has been implicated in the pathogenesis of osteoporosis. Furthermore, previous investigators have identified an association between a 3' UTR polymorphism of the IL-6 gene and BMD. In this study, we searched for linkage and association between this IL-6 gene polymorphism and peak BMD in a large population (812 individuals) of healthy premenopausal sibpairs. Although previous investigators identified only 6 IL-6 alleles, we identified 17 alleles by modifying electrophoretic conditions and evaluating a very large population. We found no evidence for either linkage or association between the IL-6 gene locus and BMD of the spine or hip in either Caucasians or African Americans.


Subject(s)
Bone Density/genetics , Genetic Linkage , Interleukin-6/genetics , Osteoporosis/genetics , Adult , Black People , Genetic Predisposition to Disease , Humans , Middle Aged , Nuclear Family , Osteoporosis/etiology , White People
15.
Am J Med Genet ; 96(1): 18-23, 2000 Feb 07.
Article in English | MEDLINE | ID: mdl-10686547

ABSTRACT

As part of a four-center NIMH Genetics Initiative on Bipolar Disorder, a genome screen using 365 markers was performed on 540 DNAs from 97 families, enriched for affected relative pairs. This is the largest uniformly ascertained and assessed linkage sample for this disease, and includes 232 subjects diagnosed with bipolar I (BPI), 32 with schizo-affective, bipolar type (SABP), 72 with bipolar II (BPII), and 88 with unipolar recurrent depression (UPR). A hierarchical set of definitions of affected status was examined. Under Model I, affected individuals were those with a diagnosis of BPI or SABP, Model II included as affected those fitting Model I plus BPII, and Model III included those fitting Model II plus UPR. This data set was previously analyzed using primarily affected sib pair methods. We report the results of nonparametric linkage analyses of the extended pedigree structure using the program Genehunter Plus. The strongest finding was a lod score of 2.5 obtained on chromosome 10 near the marker D10S1423 with diagnosis as defined under Model II. This region has been previously implicated in genome-wide studies of schizophrenia and bipolar disorder. Other chromosomal regions with lod scores over 1.50 for at least one Model Included chromosomes 8 (Model III), 16 (Model III), and 20 (Model I). Am. J. Med. Genet. (Neuropsychiatr. Genet.) 96:18-23, 2000


Subject(s)
Bipolar Disorder/genetics , Chromosomes, Human, Pair 10 , Chromosome Mapping , Female , Genotype , Humans , Lod Score , Male , Pedigree
16.
J Clin Endocrinol Metab ; 84(12): 4467-71, 1999 Dec.
Article in English | MEDLINE | ID: mdl-10599704

ABSTRACT

A major determinant of the risk for osteoporosis in later life is bone mineral density (BMD) attained during early adulthood. BMD is a complex trait that presumably is influenced by multiple genes. Insulin-like growth factor I (IGF-I) is an attractive candidate gene for osteoporosis susceptibility, because IGF-I has marked effects on bone cells and has been implicated in the pathogenesis of osteoporosis. The IGF-I gene contains a microsatellite repeat polymorphism approximately 1 kb upstream from the IGF-I gene transcription start site, and previous investigators have found a higher prevalence of the 192/192 genotype of this polymorphism among men with idiopathic osteoporosis compared to controls. In this study we used this IGF-I polymorphism to test for an association between this polymorphism and BMD in our large population of premenopausal women (1 sister randomly chosen from 292 Caucasian and 71 African-American families). We also used this polymorphism to detect linkage to BMD elsewhere in the IGF-I gene or in a nearby gene using sibling pair linkage analysis in healthy premenopausal sister pairs (542 sibling pairs: 418 Caucasian and 124 African-American). Neither test provided any evidence of linkage or association between the IGF-I gene locus and spine or femoral neck BMD in Caucasians or African-Americans.


Subject(s)
Bone Density/genetics , Insulin-Like Growth Factor I/genetics , Lod Score , Nuclear Family , Adult , Female , Femur , Genetic Predisposition to Disease , Humans , Male , Microsatellite Repeats , Osteoporosis/genetics , Polymorphism, Genetic , Spine
17.
Genet Epidemiol ; 17 Suppl 1: S627-32, 1999.
Article in English | MEDLINE | ID: mdl-10597504

ABSTRACT

Affected sibling pairs are widely used to identify chromosomal regions harboring genetic loci underlying common disease. We explore the utility of nonparametric sibling pair and family-based association methods to search for disease susceptibility loci in simulated pedigree data for a qualitative disease trait. Logistic regression was used to model gene x gene and gene x environment interactions when significant linkage and association were detected. Using these methods, we were able to detect three of the four susceptibility loci underlying the disease trait with multipoint lod scores of 1.0 or greater.


Subject(s)
Genetic Linkage , Models, Genetic , Statistics, Nonparametric , Alleles , Environment , Epistasis, Genetic , Family , Genetic Markers , Genetic Testing , Genotype , Humans , Linkage Disequilibrium , Lod Score , Logistic Models
18.
Ophthalmology ; 106(11): 2216-20, 1999 Nov.
Article in English | MEDLINE | ID: mdl-10571362

ABSTRACT

OBJECTIVE: To report the preoperative ultrasonic central pachymetric measurements on a large group of eyes undergoing laser-assisted in situ keratomileusis (LASIK) surgery for myopia and myopic astigmatism, to determine whether central corneal thickness is correlated with other geometric features of the eye or is correlated with age or gender, and to discuss the resulting limitations on possible ablation depths. DESIGN: Prospective, multisite, cross-sectional study. PARTICIPANTS: Eight hundred ninety-six eyes in 450 patients from 21 to 66 years of age. MAIN OUTCOME MEASURES: Central corneal thickness and its correlation to intraocular pressure, corneal curvature, axial length, horizontal corneal diameter, refraction, age, and gender. RESULTS: The mean central corneal thickness was 550 microm with a standard deviation of 33 and a range of 472 to 651 microm. The lower 25th quantile was 528 microm. The central corneal pachymetry correlated with the mean manual keratometric measurement (P = 0.0001), simulated keratometry (Sim K) (P = 0.0001), and intraocular pressure (P = 0.0001). Central corneal thickness did not correlate with axial length, age, gender, horizontal corneal diameter, and refraction. CONCLUSION: This clinical study shows there is a substantial range of central corneal thickness in normal myopic eyes. With LASIK, there is a general concern that one should not thin the cornea further than a given amount. Because this study shows wide variability in central corneal thickness, it is prudent to measure pachymetry before surgery and gear treatment plans accordingly. Possible treatment limits relative to corneal thickness are discussed.


Subject(s)
Astigmatism/pathology , Cornea/pathology , Keratomileusis, Laser In Situ , Myopia/pathology , Adult , Aged , Astigmatism/diagnostic imaging , Astigmatism/surgery , Cornea/diagnostic imaging , Cornea/surgery , Diagnostic Techniques, Ophthalmological , Female , Humans , Male , Middle Aged , Myopia/diagnostic imaging , Myopia/surgery , Prospective Studies , Ultrasonography
19.
J Clin Endocrinol Metab ; 84(3): 1047-51, 1999 Mar.
Article in English | MEDLINE | ID: mdl-10084593

ABSTRACT

Autosomal dominant osteopetrosis (ADO), is a heritable disorder that results from a failure of osteoclast-mediated bone resorption. The etiology of the disorder is unknown. A previous linkage study of one Danish family mapped an ADO locus to chromosome 1p21. We have studied two families from Indiana with ADO. The present study sought to determine if the ADO gene in these families was also linked to chromosome 1p21. We used six microsatellite repeat markers, which demonstrated linkage to the 1p21 ADO locus in the Danish study, to perform linkage analysis in the new kindreds. Multipoint analysis excluded linkage of ADO to chromosome 1p21 (logarithm of the odds score < -7.00) in both families. In addition, no haplotype segregated with the disorder in either family. In summary, the present investigation ruled out linkage of ADO to chromosome 1p21 in two families from Indiana. Our results demonstrate that there is locus heterogeneity of this disorder; therefore, mutations in at least two different genes can give rise to the ADO phenotype.


Subject(s)
Chromosome Mapping , Genes, Dominant , Genetic Variation , Osteopetrosis/genetics , Adolescent , Chromosomes, Human, Pair 1/genetics , Female , Foot/diagnostic imaging , Haplotypes , Humans , Microsatellite Repeats , Osteopetrosis/diagnostic imaging , Pedigree , Radiography, Thoracic
20.
J Bone Miner Res ; 13(12): 1903-8, 1998 Dec.
Article in English | MEDLINE | ID: mdl-9844108

ABSTRACT

Osteoporosis is a leading public health problem that is responsible for substantial morbidity and mortality. A major determinant of the risk for osteoporosis in later life is bone mineral density (BMD) attained during early adulthood. BMD is a complex trait that presumably is influenced by multiple genes. Recent linkage of three Mendelian BMD-related phenotypes, autosomal dominant high bone mass, autosomal recessive osteoporosis-pseudoglioma, and autosomal recessive osteopetrosis to chromosome 11q12-13 led us to evaluate this region to determine if the underlying gene(s) could also contribute to variation in BMD in the normal population. We performed a linkage study in a sample of 835 premenopausal Caucasian and African-American sisters to identify genes underlying BMD variation. A maximum multipoint LOD score of 3.50 with femoral neck BMD was obtained near the marker D11S987, in the same chromosomal region as the three Mendelian traits mentioned above. Our results suggest that the gene(s) underlying these Mendelian phenotypes also play a role in determining peak BMD in the normal population and are the first using linkage methods to establish a chromosomal location for a gene important in determining peak BMD. These findings support the hypothesis that a gene responsible for one or more of the rare Mendelian BMD traits linked to chromosome 11q12-13 has an important role in osteoporosis in the general population.


Subject(s)
Bone Density/genetics , Chromosomes, Human, Pair 11 , Genetic Linkage , Quantitative Trait, Heritable , Adult , Black People/genetics , Body Weight , Female , Humans , Lod Score , Middle Aged , Premenopause/genetics , White People/genetics
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