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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 188 peer-reviewed manuscripts)
Last updated June 22, 2017 - use the links above for up-to-date information.

†Graduate student; ‡Post-doctoral trainee.

 

Fan R, Chiu CY, Jung J, Weeks DE, Wilson AF, Bailey-Wilson JE, Amos CI, Chen Z, Mills JL, Xiong M (2016) A Comparison Study of Fixed and Mixed Effect Models for Gene Level Association Studies of Complex Traits. Genet Epidemiol 40:702-721. NIHMS817749

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, Igl W, Bailey JN, Grassmann F, Sengupta S, Bragg-Gresham JL, Burdon KP, Hebbring SJ, Wen C, Gorski M, Kim IK, Cho D, Zack D, Souied E, Scholl HP, Bala E, Lee KE, Hunter DJ, Sardell RJ, Mitchell P, Merriam JE, Cipriani V, Hoffman JD, Schick T, Lechanteur YT, Guymer RH, Johnson MP, Jiang Y†, Stanton CM, Buitendijk GH, Zhan X, Kwong AM, Boleda A, Brooks M, Gieser L, Ratnapriya R, Branham KE, Foerster JR, Heckenlively JR, Othman MI, Vote BJ, Liang HH, Souzeau E, McAllister IL, Isaacs T, Hall J, Lake S, Mackey DA, Constable IJ, Craig JE, Kitchner TE, Yang Z, Su Z, Luo H, Chen D, Ouyang H, Flagg K, Lin D, Mao G, Ferreyra H, Stark K, von Strachwitz CN, Wolf A, Brandl C, Rudolph G, Olden M, Morrison MA, Morgan DJ, Schu M, Ahn J, Silvestri G, Tsironi EE, Park KH, Farrer LA, Orlin A, Brucker A, Li M, C AC, Mohand-Said S, Sahel JA, Audo I, Benchaboune M, Cree AJ, Rennie CA, Goverdhan SV, Grunin M, Hagbi-Levi S, Campochiaro P, Katsanis N, Holz FG, Blond F, Blanche H, Deleuze JF, Igo RP, Jr., Truitt B, Peachey NS, Meuer SM, Myers CE, Moore EL, Klein R, Hauser MA, Postel EA, Courtenay MD, Schwartz SG, Kovach JL, Scott WK, Liew G, Tan AG, Gopinath B, Merriam JC, Smith RT, Khan JC, Shahid H, Moore AT, McGrath JA, Laux R, Brantley MA, Jr., Agarwal A, Ersoy L, Caramoy A, Langmann T, Saksens NT, de Jong EK, Hoyng CB, Cain MS, Richardson AJ, Martin TM, Blangero J, Weeks DE, Dhillon B, van Duijn CM, Doheny KF, Romm J, Klaver CC, Hayward C, Gorin MB, Klein ML, Baird PN, den Hollander AI, Fauser S, Yates JR, Allikmets R, Wang JJ, Schaumberg DA, Klein BE, Hagstrom SA, Chowers I, Lotery AJ, Leveillard T, Zhang K, Brilliant MH, Hewitt AW, Swaroop A, Chew EY, Pericak-Vance MA, DeAngelis M, Stambolian D, Haines JL, Iyengar SK, Weber BH, Abecasis GR, Heid IM (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

Minster RL, Hawley NL, Su C-T, Sun G, Kershaw EE, Cheng H, Buhule OD†, Lin J†, Reupena MaS, Viali Si, Tuitele J, Naseri T, Urban Z, Deka R, Weeks DE, McGarvey ST (2016) A thrifty variant in CREBRF strongly influences body mass index in Samoans. Nat Genet 48:1049-1054. PMC5069069

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. PMC5082419.

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. PMC4916415 

Yan Q‡, Chen R, Sutcliffe JS, Cook EH, Weeks DE, Li B, Chen W (2016) The impact of genotype calling errors on family-based studies. Sci Rep 6:28323. PMC4916415

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. PMC514699

Chen W, Wang T, Pino-Yanes M, Forno E, Liang L, Yan Q, Hu D, Weeks DE, Baccarelli A, Acosta-Perez E, Eng C, Han Y-Y, Boutaoui N, Laprise C, Davies GA, Hopkin JM, Moffatt MF, Cookson WOCM, Canino G, Burchard EG, Celedón JC (2017) An epigenome-wide association study of total serum immunoglobulin E in Hispanic children. The Journal of Allergy and Clinical Immunology:in press. 

Chiu CY, Jung J, Chen W, Weeks DE, Ren H, Boehnke M, Amos CI, Liu A, Mills JL, Ting Lee ML, Xiong M, Fan R (2017) Meta-analysis of quantitative pleiotropic traits for next-generation sequencing with multivariate functional linear models. Eur J Hum Genet 25:350-359. PMC5315507

Chiu CY, Jung J, Wang Y, Weeks DE, Wilson AF, Bailey-Wilson JE, Amos CI, Mills JL, Boehnke M, Xiong M, Fan R (2017) A comparison study of multivariate fixed models and Gene Association with Multiple Traits (GAMuT) for next-generation sequencing. Genet Epidemiol 41:18-34. PMC5154843

Ding Y, Liu Y, Yan Q, Fritsche LG, Cook RJ, Clemons T, Ratnapriya R, Klein ML, Abecasis GR, Swaroop A, Chew EY, Weeks DE, Chen W (2017) Bivariate Analysis of Age-Related Macular Degeneration Progression Using Genetic Risk Scores. Genetics 206:119-133. PMC5419464 

Grassmann F, Kiel C, Zimmermann ME, Gorski M, Grassmann V, Stark K, International AMD Genomics Consortium (including Weeks DE), Heid IM, Weber BH (2017) Genetic pleiotropy between age-related macular degeneration and 16 complex diseases and traits. Genome Med 9:29. PMC5368911

Shan Y†, Tromp G, Kuivaniemi H, Smelser DT, Verma SS, Ritchie MD, Elmore JR, Carey DJ, Conley YP, Gorin MB, Weeks DE (2017) Genetic risk models: Influence of model size on risk estimates and precision. Genet Epidemiol 41:282-296.  

Hong X, Hao K, Ji H, Peng S, Sherwood B, Di Narzo A, Tsai HJ, Liu X, Burd I, Wang G, Ji Y, Caruso D, Mao G, Bartell TR, Zhang Z, Pearson C, Heffner L, Cerda S, Beaty TH, Fallin MD, Lee-Parritz A, Zuckerman B, Weeks DE, Wang X (2017) Genome-wide approach identifies a novel gene-maternal pre-pregnancy BMI interaction on preterm birth. Nat Commun 8:15608. 

 




 

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

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