Genomes and Genes
Yin Yao Shugart
Affiliation: Johns Hopkins Bloomberg School of Public Health
- Stability of variable importance scores and rankings using statistical learning tools on single-nucleotide polymorphisms and risk factors involved in gene x gene and gene x environment interactionsKristin K Nicodemus
Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford, OX3 7BN, UK
BMC Proc 1:S58. 2007....
- Application of family-based association testing to assess the genotype-phenotype association involved in complex traits using single-nucleotide polymorphismsMing Hsi Wang
Department of Epidemiology, Bloomberg School of Public Health, 615 North Work Street, Johns Hopkins University, Baltimore, Maryland 21205, USA
BMC Genet 6:S68. 2005..Also, we calculated the false-positive rate on chromosome 1, which contains a true locus (D1) but no linkage disequilibrium was simulated between the trait and all the surrounding single-nucleotide polymorphisms...
- Application of the propensity score in a covariate-based linkage analysis of the Collaborative Study on the Genetics of AlcoholismBetty Q Doan
Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland 21205, USA
BMC Genet 6:S33. 2005..Several definitions of the PS were calculated, each with increasing number of covariates up to a maximum of five. To account for the potential inflation in the type I error rates, permutation based p-values were calculated...
- Comparison of significance level at the true location using two linkage approaches: LODPAL and GENEFINDERFang Chi Hsu
Section on Biostatics, Department of Public Health Sciences, Wake Forest University School of Medicine, Winston Salem, North Carolina, USA
BMC Genet 4:S46. 2003..Individuals with SBP greater than 130 mm Hg were defined as affected individuals, and all others as unaffected. Total cholesterol was treated as a covariate...
- Trends in incidence and mortality of nasopharyngeal carcinoma over a 20-25 year period (1978/1983-2002) in Sihui and Cangwu counties in southern ChinaWei Hua Jia
Department of Experimental Research, Cancer Center, Sun Yat Sen University, Guangzhou, State Key Laboratory of Oncology in Southern China, China
BMC Cancer 6:178. 2006....
- Traditional Cantonese diet and nasopharyngeal carcinoma risk: a large-scale case-control study in Guangdong, ChinaWei Hua Jia
State Key Laboratory of Oncology in Southern China, Guangzhou, 510060, China
BMC Cancer 10:446. 2010....
- Genetic polymorphisms of TLR3 are associated with Nasopharyngeal carcinoma risk in Cantonese populationJun Fang He
State Key Laboratory of Oncology in Southern China
BMC Cancer 7:194. 2007..Toll-like receptor 3 (TLR3) plays an important role in the antivirus response. Therefore, we examined the association between TLR3 gene polymorphisms and NPC susceptibility...
- A family-based association study of the glutamate transporter gene SLC1A1 in obsessive-compulsive disorder in 378 familiesY Y Shugart
Department of Epidemiology, Bloomberg School of Public Health, Johns Hopkins University, Baltimore, Maryland 21044, USA
Am J Med Genet B Neuropsychiatr Genet 150:886-92. 2009..5 kb away from the boundary of the SLC1A1 gene. However, this potential finding needs to be validated biologically. Further functional studies in this region are planned by this research group...
- An evaluation of the variance components approach: type I error, power and size of the estimated effectYin Yao Shugart
Department of Epidemiology, School of Public Health, Johns Hopkins University, Baltimore, MD, USA
Eur J Hum Genet 10:133-6. 2002....
- Genomewide linkage scan for obsessive-compulsive disorder: evidence for susceptibility loci on chromosomes 3q, 7p, 1q, 15q, and 6qY Y Shugart
Department of Epidemiology, Johns Hopkins University, Baltimore, MD 21287, USA
Mol Psychiatry 11:763-70. 2006..Given probable etiologic heterogeneity in OCD, mapping gene(s) involved in the disorder may be enhanced by replication studies, large-scale family-based linkage studies, and the application of novel statistical methods...
- The power and statistical behaviour of allele-sharing statistics when applied to models with two disease lociYin Y Shugart
Epidemiology Department, Bloomberg School of Public Health, Johns Hopkins University, Baltimore, MD 21205, USA
J Genet 81:99-103. 2002..On the other hand, when the thresholds are determined empirically under the null hypothesis, S(all) in GENEHUNTER and statistic E have similar power...
- Contributions of IBD5, IL23R, ATG16L1, and NOD2 to Crohn's disease risk in a population-based case-control study: evidence of gene-gene interactionsToshihiko Okazaki
Harvey M and Lyn P Meyerhoff Inflammatory Bowel Disease Center, Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland 21231, USA
Inflamm Bowel Dis 14:1528-41. 2008..We evaluated these in a population-based case-control study within a cohort to determine their penetrance, population attributable risk, independence, and relationship to other established CD risk factors, including NOD2...
- Significant linkage to compulsive hoarding on chromosome 14 in families with obsessive-compulsive disorder: results from the OCD Collaborative Genetics StudyJack Samuels
Department of Psychiatry and Behavioral Sciences, Johns Hopkins University, School of Medicine, 600 N Wolfe St, Meyer 4 181, Baltimore, MD 21287 7228, USA
Am J Psychiatry 164:493-9. 2007..The objective of this study was to determine whether there are chromosomal regions specifically linked to compulsive hoarding behavior in families with obsessive-compulsive disorder...
- Evidence for potential relationship between SLC1A1 and a putative genetic linkage region on chromosome 14q to obsessive-compulsive disorder with compulsive hoardingKung Yee Liang
Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland, USA
Am J Med Genet B Neuropsychiatr Genet 147:1000-2. 2008....
- Cruciferous vegetable intake and lung cancer risk: a nested case-control study matched on cigarette smokingTram Kim Lam
Department of Epidemiology, Johns Hopkins University Bloomberg School of Public Health, Baltimore, Maryland, USA
Cancer Epidemiol Biomarkers Prev 19:2534-40. 2010..Cruciferous vegetables may reduce lung cancer risk. The association between intake of cruciferous vegetables and lung cancer risk was investigated in the CLUE II study, a community-based cohort established in 1989...
- A simulation study of control sampling methods for nested case-control studies of genetic and molecular biomarkers and prostate cancer progressionMing Hsi Wang
Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, and Department of Medicine, Saint Agnes Hospital, Room E6132, 615 North Wolfe Street, Baltimore, MD 21205, USA
Cancer Epidemiol Biomarkers Prev 18:706-11. 2009..Thus, we examined the validity of relative risk (RR) estimates of prostate cancer progression using three methods for control sampling from cohorts of men with prostate cancer generated by Monte Carlo simulation...
- Association of IL10 and other immune response- and obesity-related genes with prostate cancer in CLUE IIMing Hsi Wang
Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, 615 N Wolfe Street, Baltimore, MD 21205, USA
Prostate 69:874-85. 2009..Chronic intra-prostatic inflammation and obesity are thought to influence prostate carcinogenesis. Thus, variants in genes in these pathways could be associated with prostate cancer risk...
- Results of a genome-wide linkage scan for stutteringYin Yao Shugart
Center for Inherited Disease Research, Johns Hopkins University Bayview Research Campus, Baltimore, Maryland, USA
Am J Med Genet A 124:133-5. 2004..5 on 18p and proximal 18q. Furthermore, pedigree 0006 alone gave an NPL (Srobdom) of 5.35. Overall our results suggest chromosome 18 may harbor a predisposing locus for this disorder, and additional genes may exist...
- Two British women studies replicated the association between the Val66Met polymorphism in the brain-derived neurotrophic factor (BDNF) and BMIYin Yao Shugart
Department of Epidemiology, Johns Hopkins University, Baltimore, MD 21205, USA
Eur J Hum Genet 17:1050-5. 2009..036) for adult women; I(2)-test for heterogeneity=51%, P=0.13. Our study indicated an association between BDNF and BMI in two general population studies of women. The exact role of BDNF in weight regulation merits further investigation...
- Family-based linkage disequilibrium tests using general pedigreesYin Yao Shugart
Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA
Methods Mol Biol 376:141-9. 2007..However, when the pedigree structure is more complicated, or when the number of informative families is limited, the pseudo-marker approach is anticipated to outperform FBAT...
- An evaluation of power and type I error of single-nucleotide polymorphism transmission/disequilibrium-based statistical methods under different family structures, missing parental data, and population stratificationKristin K Nicodemus
Department of Epidemiology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA
Am J Hum Genet 80:178-85. 2007..The choice of a TD-based test statistic should be dependent on the predominant family structure ascertained, the frequency of missing parental genotypes, and the assumed genetic model...
- A population-based study of DNA repair gene variants in relation to non-melanoma skin cancer as a marker of a cancer-prone phenotypeIngo Ruczinski
Department of Biostatistics, The Johns Hopkins University Bloomberg School of Public Health, Baltimore, MD, USA
Carcinogenesis 33:1692-8. 2012..A promising lead is genetic variants in TDG, important not only in base excision repair but also in regulating the epigenome and gene expression, which may contribute to the NMSC-associated increase in overall cancer risk...
- A community-based study of cigarette smoking behavior in relation to variation in three genes involved in dopamine metabolism: Catechol-O-methyltransferase (COMT), dopamine beta-hydroxylase (DBH) and monoamine oxidase-A (MAO-A)Meredith S Shiels
Department of Epidemiology, Johns Hopkins University Bloomberg School of Public Health, Baltimore, MD, USA
Prev Med 47:116-22. 2008..The association between common polymorphisms of these genes and smoking behavior was assessed among 10,059 Caucasian volunteers in Washington County, MD in 1989...
- A strabismus susceptibility locus on chromosome 7pVaishali Parikh
Departments of Molecular Biology and Genetics, Neuroscience, and Ophthalmology, and Howard Hughes Medical Institute, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
Proc Natl Acad Sci U S A 100:12283-8. 2003..These findings suggest that it will be possible to localize and ultimately identify strabismus susceptibility genes by linkage analysis and mutation screening of candidate genes...
- Factor analysis of the Yale-Brown Obsessive Compulsive Scale in a family study of obsessive-compulsive disorderBernadette Cullen
Department of Psychiatry and Behavioral Sciences, School of Medicine, Johns Hopkins University, Baltimore, Maryland, USA
Depress Anxiety 24:130-8. 2007..There were specific clinical correlates for these factors, and significant intrafamilial sib-sib correlations were found for the Symmetry/Order and Hoarding factors...
- Copy number variants of GSTM1 and GSTT1 in relation to lung cancer risk in a prospective cohort studyTram Kim Lam
Department of Epidemiology, Johns Hopkins University Bloomberg School of Public Health, Baltimore, MD, USA
Ann Epidemiol 19:546-52. 2009..Previous studies did not discriminate wild-type from hemizygous genotypes of GSTM1 and GSTT1. In this study, we investigated wild-type, hemizygous deletion, and homozygous deletion genotypes of GSTM1 and GSTT1 and lung cancer risk...
- Amish revisited: next-generation sequencing studies of psychiatric disorders among the Plain peopleLiping Hou
Human Genetics Branch, National Institute of Mental Health NIMH Intramural Research Program, National Institutes of Health NIH, US Department of Health and Human Services, Bethesda, MD, USA
Trends Genet 29:412-8. 2013..We discuss the new opportunities for NGS in these populations, with particular emphasis on investigating psychiatric disorders. We also address some of the challenges facing NGS-based studies of complex phenotypes in founder populations...
- A population-based case-control study of CARD15 and other risk factors in Crohn's disease and ulcerative colitisSteven R Brant
Harvey M and Lyn P Meyerhoff Inflammatory Bowel Disease Center, Department of Medicine, The Johns Hopkins University School of Medicine, Baltimore, Maryland 21231, USA
Am J Gastroenterol 102:313-23. 2007..The goal of this study was to assess the relative contributions of all these risk factors jointly in a nonreferral, population-based cohort derived from a population epidemiologic database...
- Weighted pedigree-based statistics for testing the association of rare variantsYin Yao Shugart
Unit of Statistical Genomics, Division of Intramural Division Program, National Institute of Mental Health, National Institute of Health, Bethesda, MD, USA
BMC Genomics 13:667. 2012..Note that while the proposed statistic can be applied with and without statistical weighting, our simulations show that its power increases when weighting (WSS and VT) are applied...
- Norepinephrine transporter polymorphisms in Tourette syndrome with and without attention deficit hyperactivity disorder: no evidence for significant associationChristopher A Rippel
Department of Neurology, Johns Hopkins University School of Medicine, Johns Hopkins University Bloomberg School of Public Health, Baltimore, MD, USA
Psychiatr Genet 16:179-80. 2006..Further research with additional NET polymorphisms and larger sample sizes are indicated in the pursuit of biomarkers for therapeutic responders...
- Gene-gene interaction in nasopharyngeal carcinomaYIN YAO; Fiscal Year: 2005..Dr. Yao, PI, has been collaborating with a research group at CCSYSU in this Chinese population and recently reported evidence of linkage to chromosome 4 from a genome-wide search for susceptibility gene. ..
- The Role of Toll-Like Receptors in NPCYIN YAO; Fiscal Year: 2007..unreadable] [unreadable] [unreadable]..