Now showing items 1-8 of 8

    • Balancing Selection on a Regulatory Region Exhibiting Ancient Variation That Predates Human–Neandertal Divergence 

      Gokcumen, Omer; Zhu, Qihui; Mulder, Lubbertus C. F.; Iskow, Rebecca C.; Austermann, Christian; Scharer, Christopher D.; Raj, Towfique; Boss, Jeremy M.; Sunyaev, Shamil R.; Price, Alkes; Stranger, Barbara; Simon, Viviana; Lee, Charles (Public Library of Science, 2013)
      Ancient population structure shaping contemporary genetic variation has been recently appreciated and has important implications regarding our understanding of the structure of modern human genomes. We identified a ∼36-kb ...
    • CD33 Alzheimer’s disease locus: Altered monocyte function and amyloid biology 

      Bradshaw, Elizabeth M; Chibnik, Lori B; Keenan, Brendan T; Ottoboni, Linda; Raj, Towfique; Tang, Anna; Rosenkrantz, Laura L; Imboywa, Selina; Lee, Michelle; Von Korff, Alina; Morris, Martha C; Evans, Denis A; Johnson, Keith; Sperling, Reisa A; Schneider, Julie A; Bennett, David A; De Jager, Philip L (2013)
      In our functional dissection of the CD33 Alzheimer’s disease susceptibility locus, we find that the rs3865444C risk allele is associated with greater cell surface expression of CD33 in monocytes (t50 = 10.06, pjoint=1.3×10–13) ...
    • Extensive Genetic Diversity and Substructuring Among Zebrafish Strains Revealed through Copy Number Variant Analysis 

      Brown, Kim; Dobrinski, Kimberly P.; Lee, Arthur S.; Gokcumen, Omer; Mills, Ryan; Shi, Xinghua; Chong, Wilson W. S.; Chen, Jin Yun Helen; Yoo, Paulo; David, Sthuthi; Peterson, Samuel M.; Raj, Towfique; Choy, Kwong Wai; Stranger, Barbara; Williamson, Robin E.; Zon, Leonard Ira; Freeman, Jennifer L.; Lee, Charles (Proceedings of the National Academy of Sciences, 2012)
      Copy number variants (CNVs) represent a substantial source of genomic variation in vertebrates and have been associated with numerous human diseases. Despite this, the extent of CNVs in the zebrafish, an important model ...
    • Fine-Mapping the Genetic Association of the Major Histocompatibility Complex in Multiple Sclerosis: HLA and Non-HLA Effects 

      Patsopoulos, Nikolaos A.; Barcellos, Lisa F.; Hintzen, Rogier Q.; Schaefer, Catherine; van Duijn, Cornelia M.; Noble, Janelle A.; Raj, Towfique; Gourraud, Pierre-Antoine; Stranger, Barbara E.; Oksenberg, Jorge; Olsson, Tomas; Taylor, Bruce V.; Sawcer, Stephen; Hafler, David A.; Carrington, Mary; De Jager, Philip L.; de Bakker, Paul I. W. (Public Library of Science, 2013)
      The major histocompatibility complex (MHC) region is strongly associated with multiple sclerosis (MS) susceptibility. HLA-DRB1*15:01 has the strongest effect, and several other alleles have been reported at different levels ...
    • Genetics of rheumatoid arthritis contributes to biology and drug discovery 

      Okada, Yukinori; Wu, Di; Trynka, Gosia; Raj, Towfique; Terao, Chikashi; Ikari, Katsunori; Kochi, Yuta; Ohmura, Koichiro; Suzuki, Akari; Yoshida, Shinji; Graham, Robert R.; Manoharan, Arun; Ortmann, Ward; Bhangale, Tushar; Denny, Joshua C.; Carroll, Robert J.; Eyler, Anne E.; Greenberg, Jeffrey D.; Kremer, Joel M.; Pappas, Dimitrios A.; Jiang, Lei; Yin, Jian; Ye, Lingying; Su, Ding-Feng; Yang, Jian; Xie, Gang; Keystone, Ed; Westra, Harm-Jan; Esko, Tõnu; Metspalu, Andres; Zhou, Xuezhong; Gupta, Namrata; Mirel, Daniel; Stahl, Eli A.; Diogo, Dorothée; Cui, Jing; Liao, Katherine; Guo, Michael H.; Myouzen, Keiko; Kawaguchi, Takahisa; Coenen, Marieke J.H.; van Riel, Piet L.C.M.; van de Laar, Mart A.F.J.; Guchelaar, Henk-Jan; Huizinga, Tom W.J.; Dieudé, Philippe; Mariette, Xavier; Bridges, S. Louis; Zhernakova, Alexandra; Toes, Rene E.M.; Tak, Paul P.; Miceli-Richard, Corinne; Bang, So-Young; Lee, Hye-Soon; Martin, Javier; Gonzalez-Gay, Miguel A.; Rodriguez-Rodriguez, Luis; Rantapää-Dahlqvist, Solbritt; Ärlestig, Lisbeth; Choi, Hyon K.; Kamatani, Yoichiro; Galan, Pilar; Lathrop, Mark; Eyre, Steve; Bowes, John; Barton, Anne; de Vries, Niek; Moreland, Larry W.; Criswell, Lindsey A.; Karlson, Elizabeth W.; Taniguchi, Atsuo; Yamada, Ryo; Kubo, Michiaki; Liu, Jun S.; Bae, Sang-Cheol; Worthington, Jane; Padyukov, Leonid; Klareskog, Lars; Gregersen, Peter K.; Raychaudhuri, Soumya; Stranger, Barbara E.; De Jager, Philip L.; Franke, Lude; Visscher, Peter M.; Brown, Matthew A.; Yamanaka, Hisashi; Mimori, Tsuneyo; Takahashi, Atsushi; Xu, Huji; Behrens, Timothy W.; Siminovitch, Katherine A.; Momohara, Shigeki; Matsuda, Fumihiko; Yamamoto, Kazuhiko; Plenge, Robert M. (2013)
      A major challenge in human genetics is to devise a systematic strategy to integrate disease-associated variants with diverse genomic and biological datasets to provide insight into disease pathogenesis and guide drug ...
    • Genome-Wide Association Study and Gene Expression Analysis Identifies CD84 as a Predictor of Response to Etanercept Therapy in Rheumatoid Arthritis 

      Cui, Jing; Stahl, Eli A.; Saevarsdottir, Saedis; Miceli, Corinne; Diogo, Dorothee; Trynka, Gosia; Raj, Towfique; Mirkov, Maša Umiċeviċ; Canhao, Helena; Ikari, Katsunori; Terao, Chikashi; Okada, Yukinori; Wedrén, Sara; Askling, Johan; Yamanaka, Hisashi; Momohara, Shigeki; Taniguchi, Atsuo; Ohmura, Koichiro; Matsuda, Fumihiko; Mimori, Tsuneyo; Gupta, Namrata; Kuchroo, Manik Razdan; Morgan, Ann W.; Isaacs, John D.; Wilson, Anthony G.; Hyrich, Kimme L.; Herenius, Marieke; Doorenspleet, Marieke E.; Tak, Paul-Peter; Crusius, J. Bart A.; van der Horst-Bruinsma, Irene E.; Wolbink, Gert Jan; van Riel, Piet L. C. M.; van de Laar, Mart; Guchelaar, Henk-Jan; Shadick, Nancy Ann; Allaart, Cornelia F.; Huizinga, Tom W. J.; Toes, Rene E. M.; Kimberly, Robert P.; Bridges, S. Louis; Criswell, Lindsey A.; Moreland, Larry W.; Fonseca, João Eurico; de Vries, Niek; Stranger, Barbara E.; De Jager, Philip Lawrence; Raychaudhuri, Soumya; Weinblatt, Michael Elliott; Gregersen, Peter K.; Mariette, Xavier; Barton, Anne; Padyukov, Leonid; Coenen, Marieke J. H.; Karlson, Elizabeth Wood; Plenge, Robert M. (Public Library of Science, 2013)
      Anti-tumor necrosis factor alpha (anti-TNF) biologic therapy is a widely used treatment for rheumatoid arthritis (RA). It is unknown why some RA patients fail to respond adequately to anti-TNF therapy, which limits the ...
    • Integration of Sequence Data from a Consanguineous Family with Genetic Data from an Outbred Population Identifies PLB1 as a Candidate Rheumatoid Arthritis Risk Gene 

      Okada, Yukinori; Diogo, Dorothee; Greenberg, Jeffrey D.; Mouassess, Faten; Achkar, Walid A. L.; Fulton, Robert S.; Denny, Joshua C.; Gupta, Namrata; Mirel, Daniel; Gabriel, Stacy; Li, Gang; Kremer, Joel M.; Pappas, Dimitrios A.; Carroll, Robert J.; Eyler, Anne E.; Trynka, Gosia; Stahl, Eli A.; Cui, Jing; Saxena, Richa; Coenen, Marieke J. H.; Guchelaar, Henk-Jan; Huizinga, Tom W. J.; Dieudé, Philippe; Mariette, Xavier; Barton, Anne; Canhão, Helena; Fonseca, João E.; de Vries, Niek; Tak, Paul P.; Moreland, Larry W.; Bridges, S. Louis; Miceli-Richard, Corinne; Choi, Hyon K.; Kamatani, Yoichiro; Galan, Pilar; Lathrop, Mark; Raj, Towfique; De Jager, Philip L.; Raychaudhuri, Soumya; Worthington, Jane; Padyukov, Leonid; Klareskog, Lars; Siminovitch, Katherine A.; Gregersen, Peter K.; Mardis, Elaine R.; Arayssi, Thurayya; Kazkaz, Layla A.; Plenge, Robert M. (Public Library of Science, 2014)
      Integrating genetic data from families with highly penetrant forms of disease together with genetic data from outbred populations represents a promising strategy to uncover the complete frequency spectrum of risk alleles ...
    • Patterns of \(Cis\) Regulatory Variation in Diverse Human Populations 

      Montgomery, Stephen B.; Dimas, Antigone S.; Parts, Leopold; Stegle, Oliver; Ingle, Catherine E.; Sekowska, Magda; Gutierrez-Arcelus, Maria; Nisbett, James; Nica, Alexandra C.; Beazley, Claude; Durbin, Richard; Deloukas, Panos; Dermitzakis, Emmanouil T.; Stranger, Barbara Elaine; Smith, George W.; Price, Alkes; Raj, Towfique (Public Library of Science, 2012)
      The genetic basis of gene expression variation has long been studied with the aim to understand the landscape of regulatory variants, but also more recently to assist in the interpretation and elucidation of disease signals. ...