Education
- B.S. in Mathematics from University of New Mexico, 1992
- M.A. in Mathematics from University of New Mexico, 1995
- Ph.D. in Biostatistics from Emory University, 2001
Positions
- 1995-1996 Hydrologist, Balleau Groundwater, Inc., Albuquerque, NM.
- 1996-1997 Senior Statistician, Department of Internal Medicine, University of New Mexico Health
Sciences Center, Albuquerque, NM.
- 1997-2001 Teaching Assistant, Department of Biostatistics, Emory University School of Public Health, Atlanta, GA.
- 1997-2001 Research Assistant, Department of Biostatistics, Emory University School of Public Health, Atlanta, GA.
- 2001-2007 Assistant Professor, Department of Biostatistics and Bioinformatics, Duke University, Durham, NC.
- 2007-present Associate Professor, Department of Biostatistics and Bioinformatics, Duke University, Durham, NC
Research interests
My research focuses on developing statistical methods for mapping complex disease genes. Most of my work has focused on genetic association studies which take advantage of associations between DNA sequences that occur due to their common evolutionary history. Recently, I have worked on estimating haplotype effects from case-control and family based data. The methods developed use semiparametric theory to develop estimators (or tests) of haplotype effects that are robust to misspecification of the population genetic model (Hardy-Weinberg Equilibrium for example). For case-parent trio data these methods have been implemented in the PCPH program which is available for download below.
Publications
Refereed journals (chronological order):
- Lindeman RD, Baumgartner RN, Romero LJ, Koehler KK, Hundley R, Schade DS, Allen AS, Carry PJ, Liang HC. Prevalences of type 2 diabetes, the insulin resistance syndrome, and coronary heart disease in an elderly, biethnic population. Diabetes Care 1998;21:959-966.
- Romero LJ, Lindeman RD, Allen AS, Liang HC, Baumgartner RN, Koehler KK, Carry PJ. Outcome of recruitment and report on participation rate in the New Mexico Elder Health Survey. Ethn Disease 1998;8:350-359.
- Lindeman RD, Romero LJ, Allen AS, Liang HC, Baumgartner RN, Koehler KK, Garry PJ. Alcohol consumption is negatively associated with the prevalence of coronary heart disease in the New Mexico Elder Health Survey. J Am Geriatr Soc 1999;47:396-401.
- Hill EG, Allen AS, Waller LA. A comparison of focused score tests and bayesian hierarchical models for detecting spatial disease clustering. J Natl Inst Pub Health 1999;48:102-112.
- Sapien RE, Allen AS. School preparation for the asthmatic student. J Asthma 2000;37:719-724.
- Dunlop AL, Allen AS, Frank E. Involving the male partner for interpreting the basal body temperature graph. Obstet Gynecol 2001;98:133-138.
- Lyles RH, Allen AS. Missing data in the 2X2 table: likelihood-based analysis for case-control and cohort designs. Am J Epidemiol 2002;155:274-281.
- Allen AS, Barnhart HX. Joint models for developmental toxicology studies with dose-dependent number of implantations. Risk Anal 2002;22:1165-1173.
- Lyles RH, Allen AS. Missing data in the 2x2 table: patterns and likelihood-based analysis for cross-sectional studies with supplemental sampling. Stat Med 2003;22:517-534.
- Allen AS, Rathouz PR, Satten GA. Informative missingness in genetic association studies that use parental controls. Am J Hum Genet 2003;72:671-680.
- Hasselblad V, Allen AS. Power calculations for large multi-arm placebo controlled studies of dichotomous outcomes. Stat Med 2003;22:1943-1954.
- Kandzari DE, Labinaz M, Cantor WJ, Madan M, Gallup DS, Hasselblad V, Joseph D, Allen AS, Green C, Hidinger KG, Krucoff MW, Christenson RH, Harrington RA, Tcheng JE. Reduction of myocardial ischemic injury following coronary intervention (the MC-1 to Eliminate Necrosis and Damage trial). Am J Cardiol 2003;92(6):660-664.
- Rampersaud E, Allen AS, Li YJ, Shao Y, Bass M, Haynes C, Ashley-Koch A, Martin ER, Schmidt S, Hauser ER. Adjusting for covariates on a slippery slope: linkage analysis of change over time. BMC Genetics 2003;4(Supp I):S50-S56.
- Allen AS, Collins JS, Rathouz PJ, Selander CL, Satten GA. Bootstrap calibration of TRANSMIT for informative missingness of parental genotype data. BMC Genetics 2003;4(Supp I):S39-S42.
- Hauser ER, Allen AS. Where the rubber meets the road in pharmacogenetics: Assessment of gene-environment interactions. American Heart Journal 2003;146(6):929-931.
- Alexander TH, Ortiz GM, Wellons MF, Allen AS, Grace II EJ, Schweighhardt B, Brancato J, Sandberg JK, Furlan SN, Miralles GD, Nixon DF, Bartlett JA. Changes in CD4+ t-cell differentiation phenotype during structured treatment interruption in patients with chronic HIV-1 infection. J Acquir Immune Defic Syndr 2003;34(5):475-481.
- Griffith TF, Chua BS, Allen AS, Klassen PS, Reddan DN, Szczech LA. Characteristics of treated hypertension in incident hemodialysis and peritoneal dialysis patients. Am J Kidney Dis 2003;42(6):1260-1269.
- Anstrom KJ, Reed SD, Allen AS, Glendenning GA, Schulman KA. Long-term survival estimates for imatinib vs interferon- plus low-dose cytarabine for patients with newly diagnosed chronic-phase chronic myeloid leukemia. Cancer 2004;101(11):2584-2592.
- Allen AS, Barnhart, H. General marginal regression models for the joint modeling of event frequency and correlated severities with applications to clinical trials. J Data Science 2005;3:199-219.
- Donohue MP, Allen AS. Genetic association studies in cardiology. Am Heart J 2005;149(6):964-970.
- Allen AS, Satten GA, Tsiatis AA. Locally-efficient robust estimation of haplotype-disease association in family-based studies. Biometrika 2005;92(3):559-571.
- Li YJ, Martin ER, Zhang L, Allen AS. Application of a rank-based genetic association test to age-at-onset data from the Collaborative Study on the Genetics of Alcoholism (COGA). BMC Genetics 2005;6(Suppl 1):S53.
- Allen AS, Satten GA. Robust testing of haplotype/disease association. BMC Genetics 2005; 6(Suppl1):S69.
- Hedayati SS, Grambow SC, Szczech LA, Stechuchak KM, Allen AS, Bosworth HB. Physician-diagnosed depression as a correlate of hospitalizations in patients receiving long-term hemodialysis. Am J Kidney Dis 2005;46(4):642-649.
- Satten GA, Allen AS, Epstein MP. Comment on ‘Likelihood-based inference on haplotype effects in genetic association studies’ by Lin and Zeng. J Am Stat Assoc 2006;101(473):107-108.
- Allen AS, Martin ER, Qin X, Li YJ. Genetic Association Tests based On Ranks (GATOR) for quantitative traits with and without censoring. Genet Epidemiol 2006;30:248-258.
- Lyles RH, Allen AS, Flanders WD, Kupper LL, Christensen DL. Inference for case-control studies when exposure status is both informatively missing and misclassified. Statist Med 2006;in press.
- Allen AS, Satten GA. Inference on haplotype/disease association using parent-affected-child data: The projection on parental haplotypes method. Genet Epidemiol 2007 Jan 31;31(3):211-223.
- Allen AS, Satten GA. Robust estimation and testing of haplotype effects in case-control studies. Genet Epidemiol. 2007 Oct 18.
- Allen AS, Satten GA. Statistical models for haplotype sharing in case-parent trio data. Hum Hered. 2007;64(1):35-44
- Epstein MP, Allen AS, Satten GA. A simple and improved correction for population stratification in case-control studies. Am J Hum Genet. 2007 May;80(5):921-30.
- Kwee LC, Epstein MP, Manatunga AK, Duncan R, Allen AS, Satten GA. Simple methods for assessing haplotype-environment interactions in case-only and case-control studies. Genet Epidemiol. 2007 Jan;31(1):75-90
- Levesque MC, Hauswirth DW, Mervin-Blake S, Fernandez CA, Patch KB, Alexander KM, Allgood S, McNair PD, Allen AS, Sundy JS. Determinants of exhaled nitric oxide levels in healthy, nonsmoking African American adults. J Allergy Clin Immunol. 2007 Nov 23.
- de Andrade M, Allen AS, . Summary of contributions to GAW15 Group 13: candidate gene association studies. Genet Epidemiol. 2007 Nov 28;31(S1):S110-S117.
Bookchapters:
- Anstrom KJ, Weinfurt KP, Allen AS. “Estimating causal effects in randomized studies with imperfect adherence: conceptual and statistical foundations,” in: Patient Treatment Adherence: Concepts, Interventions, And Measurement, Weinberger M, Bosworth H, Oddone EZ (Eds.). Lawrence Erlbaum Associates 2005.
Letters:
- Romero LJ, Lindeman RD, Allen AS. Influence of ethnicity on advance directives and end-of-Life decisions. JAMA 1997;277:298-299.
Research Support
NIH #1K25-077663 Allen, Andrew S. (PI) 07/01/04-06/30/09 80%
$662,790 total direct costs
Advanced Haplotype Analyses in Coronary Artery Disease
Objective: Develop and implement novel statistical approaches to analyzing phenotype/haplotype associations with a particular emphasis on cardiovascular phenotypes.
Role: Primary Investigator
Software
