Soumya Raychaudhuri

Summary

Affiliation: Massachusetts Institute of Technology
Country: USA

Publications

  1. ncbi Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions
    Soumya Raychaudhuri
    Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
    PLoS Genet 5:e1000534. 2009
  2. ncbi Genetic variants at CD28, PRDM1 and CD2/CD58 are associated with rheumatoid arthritis risk
    Soumya Raychaudhuri
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Boston, Massachusetts, USA
    Nat Genet 41:1313-8. 2009
  3. ncbi Common variants near FRK/COL10A1 and VEGFA are associated with advanced age-related macular degeneration
    Yi Yu
    Ophthalmic Epidemiology and Genetics Service, New England Eye Center, Tufts Medical Center, Tufts University School of Medicine, 800 WashingtonStreet, No 450, Boston, MA 02111, USA
    Hum Mol Genet 20:3699-709. 2011
  4. ncbi Genome-wide association study meta-analysis identifies seven new rheumatoid arthritis risk loci
    Eli A Stahl
    Division of Rheumatology, Immunology and Allergy, Brigham and Women s Hospital, Boston, Massachusetts, USA
    Nat Genet 42:508-14. 2010
  5. ncbi A rare penetrant mutation in CFH confers high risk of age-related macular degeneration
    Soumya Raychaudhuri
    Division of Genetics, Brigham and Women s Hospital, Boston, Massachusetts, USA
    Nat Genet 43:1232-6. 2011
  6. ncbi Common variants at CD40 and other loci confer risk of rheumatoid arthritis
    Soumya Raychaudhuri
    Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA
    Nat Genet 40:1216-23. 2008
  7. ncbi Genome-wide association study of advanced age-related macular degeneration identifies a role of the hepatic lipase gene (LIPC)
    Benjamin M Neale
    Center for Human Genetic Research, Massachusetts General Hospital, Boston, MA 02114, USA
    Proc Natl Acad Sci U S A 107:7395-400. 2010
  8. ncbi Rheumatoid arthritis risk allele PTPRC is also associated with response to anti-tumor necrosis factor alpha therapy
    Jing Cui
    Brigham and Women s Hospital, Boston, Massachusetts 02115, USA
    Arthritis Rheum 62:1849-61. 2010
  9. ncbi Integrating autoimmune risk loci with gene-expression data identifies specific pathogenic immune cell subsets
    Xinli Hu
    Division of Genetics, Brigham and Women s Hospital, Harvard Medical School, Boston, MA 02115, USA
    Am J Hum Genet 89:496-506. 2011
  10. ncbi Practical aspects of imputation-driven meta-analysis of genome-wide association studies
    Paul I W de Bakker
    Division of Genetics, Department of Medicine, Brigham and Women s Hospital, Harvard Medical School Partners Healthcare Systems Center for Genetics and Genomics, Boston, MA 02115, USA
    Hum Mol Genet 17:R122-8. 2008

Detail Information

Publications24

  1. ncbi Identifying relationships among genomic disease regions: predicting genes at pathogenic SNP associations and rare deletions
    Soumya Raychaudhuri
    Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States of America
    PLoS Genet 5:e1000534. 2009
    ..An online version of this method is available for public use (http://www.broad.mit.edu/mpg/grail/)...
  2. ncbi Genetic variants at CD28, PRDM1 and CD2/CD58 are associated with rheumatoid arthritis risk
    Soumya Raychaudhuri
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Boston, Massachusetts, USA
    Nat Genet 41:1313-8. 2009
    ..0008 replication, P = 4 x 10(-6) overall) and FCGR2A (rs12746613, P = 0.0022 replication, P = 2 x 10(-5) overall). Many of these loci are also associated to other immunologic diseases...
  3. ncbi Common variants near FRK/COL10A1 and VEGFA are associated with advanced age-related macular degeneration
    Yi Yu
    Ophthalmic Epidemiology and Genetics Service, New England Eye Center, Tufts Medical Center, Tufts University School of Medicine, 800 WashingtonStreet, No 450, Boston, MA 02111, USA
    Hum Mol Genet 20:3699-709. 2011
    ..The novel variants identified in this study suggest that angiogenesis (VEGFA) and extracellular collagen matrix (FRK/COL10A1) pathways contribute to the development of advanced AMD...
  4. ncbi Genome-wide association study meta-analysis identifies seven new rheumatoid arthritis risk loci
    Eli A Stahl
    Division of Rheumatology, Immunology and Allergy, Brigham and Women s Hospital, Boston, Massachusetts, USA
    Nat Genet 42:508-14. 2010
    ..An additional 11 SNPs replicated at P < 0.05, many of which are validated autoimmune risk alleles, suggesting that most represent genuine rheumatoid arthritis risk alleles...
  5. ncbi A rare penetrant mutation in CFH confers high risk of age-related macular degeneration
    Soumya Raychaudhuri
    Division of Genetics, Brigham and Women s Hospital, Boston, Massachusetts, USA
    Nat Genet 43:1232-6. 2011
    ..This result suggests that loss-of-function alleles at CFH are likely to drive AMD risk. This finding represents one of the first instances in which a common complex disease variant has led to the discovery of a rare penetrant mutation...
  6. ncbi Common variants at CD40 and other loci confer risk of rheumatoid arthritis
    Soumya Raychaudhuri
    Program in Medical and Population Genetics, Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA
    Nat Genet 40:1216-23. 2008
    ..1 x 10(-7) overall), CDK6 (rs42041, P = 0.010 replication, P = 4.0 x 10(-6) overall), PRKCQ (rs4750316, P = 0.0078 replication, P = 4.4 x 10(-6) overall), and KIF5A-PIP4K2C (rs1678542, P = 0.0026 replication, P = 8.8 x 10(-8) overall)...
  7. ncbi Genome-wide association study of advanced age-related macular degeneration identifies a role of the hepatic lipase gene (LIPC)
    Benjamin M Neale
    Center for Human Genetic Research, Massachusetts General Hospital, Boston, MA 02114, USA
    Proc Natl Acad Sci U S A 107:7395-400. 2010
    ..Results implicate different biologic pathways than previously reported and provide new avenues for prevention and treatment of AMD...
  8. ncbi Rheumatoid arthritis risk allele PTPRC is also associated with response to anti-tumor necrosis factor alpha therapy
    Jing Cui
    Brigham and Women s Hospital, Boston, Massachusetts 02115, USA
    Arthritis Rheum 62:1849-61. 2010
    ..The aim of the present study was to test established RA genetic risk factors to determine whether the same alleles also influence the response to anti-TNF therapy...
  9. ncbi Integrating autoimmune risk loci with gene-expression data identifies specific pathogenic immune cell subsets
    Xinli Hu
    Division of Genetics, Brigham and Women s Hospital, Harvard Medical School, Boston, MA 02115, USA
    Am J Hum Genet 89:496-506. 2011
    ..Our approach has application in other phenotypes, outside of autoimmunity, where many loci have been discovered and high-quality cell-type-specific gene expression is available...
  10. ncbi Practical aspects of imputation-driven meta-analysis of genome-wide association studies
    Paul I W de Bakker
    Division of Genetics, Department of Medicine, Brigham and Women s Hospital, Harvard Medical School Partners Healthcare Systems Center for Genetics and Genomics, Boston, MA 02115, USA
    Hum Mol Genet 17:R122-8. 2008
    ..As many groups are forming collaborations to engage in these efforts, this review collects a series of guidelines, practical detail and learned experiences from a variety of individuals who have contributed to the subject...
  11. ncbi Leveraging human genetics to develop future therapeutic strategies in rheumatoid arthritis
    Robert M Plenge
    Division of Rheumatology, Immunology and Allergy, Brigham and Women s Hospital, Harvard Medical School, 77 Avenue Louis Pasteur, Suite 168, Boston, MA 02115, USA
    Rheum Dis Clin North Am 36:259-70. 2010
    ....
  12. ncbi Genetic basis of autoantibody positive and negative rheumatoid arthritis risk in a multi-ethnic cohort derived from electronic health records
    Fina Kurreeman
    Division of Rheumatology, Immunology, and Allergy and Division of Genetics, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts 02115, USA Program in Medical and Population Genetics, Broad Institute, Cambridge, Massachusetts 02142, USA
    Am J Hum Genet 88:57-69. 2011
    ....
  13. ncbi Five amino acids in three HLA proteins explain most of the association between MHC and seropositive rheumatoid arthritis
    Soumya Raychaudhuri
    Division of Genetics, Brigham and Women s Hospital, Harvard Medical School, Boston, Massachusetts, USA
    Nat Genet 44:291-6. 2012
    ..This study shows how imputation of functional variation from large reference panels can help fine map association signals in the MHC...
  14. ncbi Use of a multiethnic approach to identify rheumatoid- arthritis-susceptibility loci, 1p36 and 17q12
    Fina A S Kurreeman
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Harvard Medical School, Boston, MA, 02115, USA
    Am J Hum Genet 90:524-32. 2012
    ....
  15. ncbi Twelve type 2 diabetes susceptibility loci identified through large-scale association analysis
    Benjamin F Voight
    Broad Institute of Harvard and Massachusetts Institute of Technology, Cambridge, MA, USA
    Nat Genet 42:579-89. 2010
    ..We also show that a high proportion of T2D susceptibility loci harbor independent association signals influencing apparently unrelated complex traits...
  16. ncbi Proteins encoded in genomic regions associated with immune-mediated disease physically interact and suggest underlying biology
    Elizabeth J Rossin
    Center for Human Genetics Research, Massachusetts General Hospital, Boston, Massachusetts, United States of America
    PLoS Genet 7:e1001273. 2011
    ....
  17. ncbi Recent advances in the genetics of rheumatoid arthritis
    Soumya Raychaudhuri
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Boston, Massachusetts 02115, USA
    Curr Opin Rheumatol 22:109-18. 2010
    ..To review the recently discovered genetic risk loci in rheumatoid arthritis (RA), the pathways they implicate, and the genetic architecture of RA...
  18. ncbi The PRL -1149 G/T polymorphism and rheumatoid arthritis susceptibility
    Yvonne C Lee
    Brigham and Women s Hospital, Boston, Massachusetts 02115, USA
    Arthritis Rheum 60:1250-4. 2009
    ..The aim of this study was to determine the role of the PRL -1149 G/T polymorphism (rs1341239) in rheumatoid arthritis (RA) susceptibility...
  19. ncbi Meta-analysis of genome scans and replication identify CD6, IRF8 and TNFRSF1A as new multiple sclerosis susceptibility loci
    Philip L De Jager
    Division of Molecular Immunology, Center for Neurologic Diseases, Department of Neurology, Brigham and Women s Hospital and Harvard Medical School, Boston, MA, USA
    Nat Genet 41:776-82. 2009
    ....
  20. ncbi Mapping rare and common causal alleles for complex human diseases
    Soumya Raychaudhuri
    Division of Genetics, Brigham and Women s Hospital, Harvard Medical School, Boston, MA 02115, USA
    Cell 147:57-69. 2011
    ....
  21. ncbi Electronic medical records for discovery research in rheumatoid arthritis
    Katherine P Liao
    Brigham and Women s Hospital, Boston, Massachusetts, USA
    Arthritis Care Res (Hoboken) 62:1120-7. 2010
    ..We assessed whether a classification algorithm incorporating narrative EMR data (typed physician notes) more accurately classifies subjects with rheumatoid arthritis (RA) compared with an algorithm using codified EMR data alone...
  22. ncbi Association analyses of 249,796 individuals reveal 18 new loci associated with body mass index
    Elizabeth K Speliotes
    Metabolism Initiative and Program in Medical and Population Genetics, Broad Institute, Cambridge, Massachusetts, USA
    Nat Genet 42:937-48. 2010
    ..Furthermore, genes in other newly associated loci may provide new insights into human body weight regulation...
  23. ncbi The Lin28/let-7 axis regulates glucose metabolism
    Hao Zhu
    Stem Cell Transplantation Program, Division of Pediatric Hematology Oncology, Children s Hospital Boston and Dana Farber Cancer Institute, Boston, MA, USA
    Cell 147:81-94. 2011
    ..These data establish the Lin28/let-7 pathway as a central regulator of mammalian glucose metabolism...
  24. ncbi VIZ-GRAIL: visualizing functional connections across disease loci
    Soumya Raychaudhuri
    Divisions of Genetics and Rheumatology, Brigham and Women s Hospital, Boston, MA 02115, USA
    Bioinformatics 27:1589-90. 2011
    ..Here, we have implemented VIZ-GRAIL, a software tool to display those relationships and to depict the underlying biological patterns...