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Jia, Xiaoming, Buhm Han, Suna Onengut-Gumuscu, Wei-Min Chen, Patrick Concannon, Stephen Rich, Soumya Raychaudhuri, and Paul Bakker. 2013. “Imputing Amino Acid Polymorphisms in Human Leukocyte Antigens”. PLoS One 8 (6): e64683.

Viatte, Sebastien, Darren Plant, and Soumya Raychaudhuri. 2013. “Genetics and Epigenetics of Rheumatoid Arthritis”. Nat Rev Rheumatol 9 (3): 141-53.

Plenge, Robert, Jeffrey Greenberg, Lara Mangravite, Jonathan Derry, Eli Stahl, Marieke Jh Coenen, Anne Barton, et al. 2013. “Crowdsourcing Genetic Prediction of Clinical Utility in the Rheumatoid Arthritis Responder Challenge”. Nat Genet 45 (5): 468-9.

Chen, Yukun, Robert Carroll, Eugenia McPeek Hinz, Anushi Shah, Anne Eyler, Joshua Denny, and Hua Xu. 2013. “Applying Active Learning to High-Throughput Phenotyping Algorithms for Electronic Health Records Data”. J Am Med Inform Assoc 20 (e2): e253-9.

Steenbergen, Raychaudhuri, Rodríguez-Rodríguez, Rantapää-Dahlqvist, Berglin, Toes, Huizinga, Fernández-Gutiérrez, Gregersen, and Helm-van Mil. 2015. “Association of Valine and Leucine at HLA-DRB1 Position 11 With Radiographic Progression in Rheumatoid Arthritis, Independent of the Shared Epitope Alleles But Not Independent of Anti-Citrullinated Protein Antibodies”. Arthritis Rheumatol 67 (4): 877-86.

Raychaudhuri, Younas, Karplus, Faerman, and Ripoll. 1997. “Backbone Makes a Significant Contribution to the Electrostatics of Alpha/Beta-Barrel Proteins”. Protein Sci 6 (9): 1849-57.

Raychaudhuri, Soumya, Jeffrey Chang, Patrick Sutphin, and Russ Altman. 2002. “Associating Genes With Gene Ontology Codes Using a Maximum Entropy Analysis of Biomedical Literature”. Genome Res 12 (1): 203-14.

Kong, Augustine, Valgerdur Steinthorsdottir, Gisli Masson, Gudmar Thorleifsson, Patrick Sulem, Soren Besenbacher, Aslaug Jonasdottir, et al. 2009. “Parental Origin of Sequence Variants Associated With Complex Diseases”. Nature 462 (7275): 868-74.

Karlson, Elizabeth, Lori Chibnik, Peter Kraft, Jing Cui, Brendan Keenan, Bo Ding, Souyma Raychaudhuri, Lars Klareskog, Lars Alfredsson, and Robert Plenge. 2010. “Cumulative Association of 22 Genetic Variants With Seropositive Rheumatoid Arthritis Risk”. Ann Rheum Dis 69 (6): 1077-85.

Finucane, Hilary, Yakir Reshef, Verneri Anttila, Kamil Slowikowski, Alexander Gusev, Andrea Byrnes, Steven Gazal, et al. 2018. “Heritability Enrichment of Specifically Expressed Genes Identifies Disease-Relevant Tissues and Cell Types”. Nature Genetics 50 (4): 621-29.