Selected papers and talks


Vattathil S, Scheet, P. 2013. Haplotype-based profiling of subtle allelic imbalance with SNP arrays. Genome Research

San Lucas FA, Wang G, Scheet P, Peng B. 2012. Integrated annotation and analysis of genetic variants from next-generation sequencing studies with variant tools. Bioinformatics

San Lucas FA, Rosenberg NA, Scheet P. 2011. Haploscope: a tool for the graphical display of haplotype structure in populations. Genetic Epidemiology

Yang JJ et al. 2011. Ancestry and pharmacogenomics of relapse in acute lymphoblastic leukemia. Nature Genetics

Zheng J, Li Y, Abecasis GR, Scheet P. 2011. A comparison of approaches to account for uncertainty in analysis of imputed genotypes. Genetic Epidemiology 35:102-10.

Huang L, Li Y, Singleton AB, Hardy JA, Abecasis G, Rosenberg NA, Scheet P. Genotype-imputation accuracy across worldwide human populations. Am J Hum Genet. 2009 Feb;84(2):235-50.

P. Scheet, M. Stephens. 2008. Linkage disequilibrium-based quality control for large-scale genetic studies. PLoS Genetics 4(8): e1000147

M. Jakobsson*, S. W. Scholz*, P. Scheet*, J Raphael Gibbs, J. M. VanLiere, H. Fung, Z. A. Szpiech, J. H. Degnan, R. Guerreiro, J. M. Bras, J. C. Schymick, D. Hernandez, B. J. Traynor, J. Simon-Sanchez, M Matarin, A. Britton, J. van de Leemput, I. Rafferty, H. M. Cann, J. A. Hardy, N. A. Rosenberg, A. B. Singleton. 2008. Genotype, haplotype, and copy number variation in worldwide human populations. Nature 451(7181):998-1003.

Scheet, P and Stephens, M (2006) A Fast and Flexible Statistical Model for Large-Scale Population Genotype Data: Applications to Inferring Missing Genotypes and Haplotypic Phase. American Journal of Human Genetics 78: 629-644

Stephens, M and Scheet, P (2005). Accounting for Decay of Linkage Disequilibrium in Haplotype Inference and Missing-Data Imputation. American Journal Human Genetics, 76:449-462.

For additional publications, please see my PubMed entry.

Supplemental files for papers

Deshpande, A et al (2017). Strategies for identification of somatic variants using the Ion Torrent deep targeted sequencing platform. (Under review) Variant dataframe and Python script