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Dr. Daniel E Weeks, PhD

Professor, Human Genetics

Professor, Biostatistics

Contact

A303 Crabtree Hall, 130 DeSoto Street, Pittsburgh, PA 15261
R-znvy: jrrxf@cvgg.rqh
Primary Phone: 967-179-0833
Fax: 967-179-8575
Web site:


Personal Statement

Dr. Weeks' research focuses on statistical human genetics in the area of mapping susceptibility loci involved in complex diseases. His primary interest is developing new mapping methods, which involves developing algorithms and statistics, implementing them in computer programs, and testing them on real and simulated data. In addition, he is actively involved in a large number of collaborative disease gene mapping projects, all of which constantly challenge him to develop new and more useful methods for dealing with the complexities of real data. These diseases include age-related macular degeneration, obesity, otitis media, asthma, and food allergy.  In addition, he and his colleagues are studying the effects of methylation on risk for childhood asthma, and on patient outcomes after aneurysmal subarachnoid hemorrhage and traumatic brain injury.


Education

1983         B.A., summa cum laude, Biology and Mathematics, Colby College, Waterville, ME

1983-84   Graduate studies in Applied Mathematics, Rutgers University, New Brunswick, NJ
1985         M.S., Biomathematics, University of California, Los Angeles
1988         Ph.D., Biomathematics (Kenneth Lange, mentor), University of California, Los Angeles
1989-90    Postdoctoral training (Jurg Ott, mentor), Columbia University, New York, NY

Fellowships:
1982       Research Training Program, The Jackson Laboratory, Bar Harbor, ME (David E. Harrison, mentor)
1983       Summer Student Fellow, Woods Hole Oceanographic Institution, MA (Hal Caswell, mentor)
1986-87  Genetic Mechanisms Training Program, UCLA
1987-88  Systems and Integrative Biology Training Program, UCLA
1989-90  Postdoctoral Fellow with Jurg Ott, Ph.D., Columbia University


Teaching


Academic Appointments

1989-90   Research Scientist, New York State Psychiatric Institute
1990-96   Assistant Professor of Human Genetics (tenure-track), University of Pittsburgh
1994-98   Head of Statistical Genetics - Methods, Wellcome Trust Centre for Human Genetics, University of Oxford
1996-02   Associate Professor of Human Genetics (tenured), University of Pittsburgh
2002-03   Associate Professor of Biostatistics (joint appointment), University of Pittsburgh
2004        Acting Chair, Department of Human Genetics
2005        Acting Vice Chair, Department of Human Genetics
2002-       Professor of Human Genetics (tenured), University of Pittsburgh
2003-       Professor of Biostatistics (joint appointment), University of Pittsburgh


Selected Publications

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Orcid ID

Recent publications (from more than 179 peer-reviewed manuscripts)
Last updated June 17, 2016 - use the links above for up-to-date information.

Baron RV, Conley YP, Gorin MB, Weeks DE (2015) dbVOR: a database system for importing pedigree, phenotype and genotype data and exporting selected subsets. BMC Bioinformatics 16:91. PMC4407391

Bui DK, Jiang Y, Wei X, Ortube MC, Weeks DE, Conley YP, Gorin MB (2015) Genetic ME-a visualization application for merging and editing pedigrees for genetic studies. BMC Res Notes 8:241. PMC4478623

Fung C, Zhou P, Joyce S, Trent K, Yuan JM, Grandis JR, Weissfeld JL, Romkes M, Weeks DE, Egloff AM (2015) Identification of epidermal growth factor receptor (EGFR) genetic variants that modify risk for head and neck squamous cell carcinoma. Cancer Lett 357:549-556. PMC4295492

Hafren L, Einarsdottir E, Kentala E, Hammaren-Malmi S, Bhutta MF, MacArthur CJ, Wilmot B, Casselbrant M, Conley YP, Weeks DE, Mandel EM, Vaarala O, Kallio A, Melin M, Nieminen JK, Leinonen E, Kere J, Mattila PS (2015) Predisposition to Childhood Otitis Media and Genetic Polymorphisms within the Toll-Like Receptor 4 (TLR4) Locus. PLoS One 10:e0132551. PMC4503307

 

Hong X, Hao K, Ladd-Acosta C, Hansen KD, Tsai HJ, Liu X, Xu X, Thornton TA, Caruso D, Keet CA, Sun Y, Wang G, Luo W, Kumar R, Fuleihan R, Singh AM, Kim JS, Story RE, Gupta RS, Gao P, Chen Z, Walker SO, Bartell TR, Beaty TH, Fallin MD, Schleimer R, Holt PG, Nadeau KC, Wood RA, Pongracic JA, Weeks DE, Wang X (2015) Genome-wide association study identifies peanut allergy-specific loci and evidence of epigenetic mediation in US children. Nat Commun 6:6304. PMC4340086

 

Ozbek U, Feingold E, Weeks DE (2015) Efficient Identification of Null-Allele Single Nucleotide Polymorphism Markers. Hum Hered 80:79-89

Yan Q, Weeks DE, Celedon JC, Tiwari HK, Li B, Wang X, Lin WY, Lou XY, Gao G, Chen W, Liu N (2015) Associating Multivariate Quantitative Phenotypes with Genetic Variants in Family Samples with a Novel Kernel Machine Regression Method. Genetics 201:1329-1339. PMC4676518

Fan R, Wang Y, Yan Q, Ding Y, Weeks DE, Lu Z, Ren H, Cook RJ, Xiong M, Swaroop A, Chew EY, Chen W (2016) Gene-Based Association Analysis for Censored Traits Via Fixed Effect Functional Regressions. Genet Epidemiol 40:133-143. PMC4724326

Fritsche LG, et al. (2016) A large genome-wide association study of age-related macular degeneration highlights contributions of rare and common variants. Nat Genet 48:134-143. PMC4745342

 

Hong X, Ladd-Acosta C, Hao K, Sherwood B, Ji H, Keet CA, Kumar R, Caruso D, Liu X, Wang G, Chen Z, Ji Y, Mao G, Walker SO, Bartell TR, Ji Z, Sun Y, Tsai HJ, Pongracic JA, Weeks DE, Wang X (2016) Epigenome-wide association study links site-specific DNA methylation changes with cow's milk allergy. J Allergy Clin Immunol

 

Ningappa M, Ashokkumar C, Higgs BW, Sun Q, Jaffe R, Mazariegos G, Li D, Weeks DE, Subramaniam S, Ferrell R, Hakonarson H, Sindhi R (2016) Enhanced B Cell Alloantigen Presentation and Its Epigenetic Dysregulation in Liver Transplant Rejection. Am J Transplant 16:497-508

Yan Q, Weeks DE, Tiwari HK, Yi N, Zhang K, Gao G, Lin WY, Lou XY, Chen W, Liu N (2016) Rare-Variant Kernel Machine Test for Longitudinal Data from Population and Family Samples. Hum Hered 80:126-138

Zeng Z, Weeks DE, Chen W, Mukhopadhyay N, Feingold E (2016) A Pipeline for Classifying Relationships Using Dense SNP/SNV Data and Putative Pedigree Information. Genet Epidemiol 40:161-171

Daniel E Weeks
© 2017 by University of Pittsburgh Graduate School of Public Health

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