Browsing Harvard Medical School by Author "Brown, James B."

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    • Comparative Analysis of the Transcriptome Across Distant Species 

      Gerstein, Mark B.; Rozowsky, Joel; Yan, Koon-Kiu; Wang, Daifeng; Cheng, Chao; Brown, James B.; Davis, Carrie A.; Hillier, LaDeana; Sisu, Cristina; Li, Jingyi Jessica; Pei, Baikang; Harmanci, Arif O.; Duff, Michael O.; Djebali, Sarah; Alexander, Roger P.; Alver, Burak; Auerbach, Raymond; Bell, Kimberly; Bickel, Peter J.; Boeck, Max E.; Boley, Nathan P.; Booth, Benjamin W.; Cherbas, Lucy; Cherbas, Peter; Di, Chao; Dobin, Alex; Drenkow, Jorg; Ewing, Brent; Fang, Gang; Fastuca, Megan; Feingold, Elise A.; Frankish, Adam; Gao, Guanjun; Good, Peter J.; Guigó, Roderic; Hammonds, Ann; Harrow, Jen; Hoskins, Roger A.; Howald, Cédric; Hu, Long; Huang, Haiyan; Hubbard, Tim J. P.; Huynh, Chau; Jha, Sonali; Kasper, Dionna; Kato, Masaomi; Kaufman, Thomas C.; Kitchen, Robert R.; Ladewig, Erik; Lagarde, Julien; Lai, Eric; Leng, Jing; Lu, Zhi; MacCoss, Michael; May, Gemma; McWhirter, Rebecca; Merrihew, Gennifer; Miller, David M.; Mortazavi, Ali; Murad, Rabi; Oliver, Brian; Olson, Sara; Park, Peter; Pazin, Michael J.; Perrimon, Norbert; Pervouchine, Dmitri; Reinke, Valerie; Reymond, Alexandre; Robinson, Garrett; Samsonova, Anastasia; Saunders, Gary I.; Schlesinger, Felix; Sethi, Anurag; Slack, Frank J.; Spencer, William C.; Stoiber, Marcus H.; Strasbourger, Pnina; Tanzer, Andrea; Thompson, Owen A.; Wan, Kenneth H.; Wang, Guilin; Wang, Huaien; Watkins, Kathie L.; Wen, Jiayu; Wen, Kejia; Xue, Chenghai; Yang, Li; Yip, Kevin; Zaleski, Chris; Zhang, Yan; Zheng, Henry; Brenner, Steven E.; Graveley, Brenton R.; Celniker, Susan E.; Gingeras, Thomas R.; Waterston, Robert (Springer Science and Business Media LLC, 2014-08-27)
      The transcriptome is the readout of the genome. Identifying common features in it across distant species can reveal fundamental principles. To this end, the ENCODE and modENCODE consortia have generated large amounts of ...

    • The Developmental Transcriptome of Drosophila Melanogaster 

      Graveley, Brenton R.; Brooks, Angela N.; Carlson, Joseph W.; Duff, Michael O.; Landolin, Jane M.; Yang, Li; Artieri, Carlo G.; van Baren, Marijke J.; Boley, Nathan; Booth, Benjamin W.; Brown, James B.; Cherbas, Lucy; Davis, Carrie A.; Dobin, Alex; Li, Renhua; Lin, Wei; Malone, John H.; Mattiuzzo, Nicolas R.; Miller, David; Sturgill, David; Tuch, Brian B.; Zaleski, Chris; Zhang, Dayu; Blanchette, Marco; Dudoit, Sandrine; Eads, Brian; Green, Richard E.; Hammonds, Ann; Jiang, Lichun; Kapranov, Phil; Langton, Laura; Perrimon, Norbert; Sandler, Jeremy E.; Wan, Kenneth H.; Willingham, Aarron; Zhang, Yu; Zou, Yi; Andrews, Justen; Bickel, Peter J.; Brenner, Steven E.; Brent, Michael R.; Cherbas, Peter; Gingeras, Thomas R.; Hoskins, Roger A.; Kaufman, Thomas C.; Oliver, Brian; Celniker, Susan E. (Springer Science and Business Media LLC, 2011)
      Drosophila melanogaster is one of the most well studied genetic model organisms, nonetheless its genome still contains unannotated coding and non-coding genes, transcripts, exons, and RNA editing sites. Full discovery and ...

    • Diversity and dynamics of the Drosophila transcriptome 

      Brown, James B.; Boley, Nathan; Eisman, Robert; May, Gemma E.; Stoiber, Marcus H.; Duff, Michael O.; Booth, Ben W.; Wen, Jiayu; Park, Soo; Suzuki, Ana Maria; Wan, Kenneth H.; Yu, Charles; Zhang, Dayu; Carlson, Joseph W.; Cherbas, Lucy; Eads, Brian D.; Miller, David; Mockaitis, Keithanne; Roberts, Johnny; Davis, Carrie A.; Frise, Erwin; Hammonds, Ann S.; Olson, Sara; Shenker, Sol; Sturgill, David; Samsonova, Anastasia A.; Weiszmann, Richard; Robinson, Garret; Hernandez, Juan; Andrews, Justen; Bickel, Peter J.; Carninci, Piero; Cherbas, Peter; Gingeras, Thomas R.; Hoskins, Roger A.; Kaufman, Thomas C.; Lai, Eric C.; Oliver, Brian; Perrimon, Norbert; Graveley, Brenton R.; Celniker, Susan E. (2014)
      Animal transcriptomes are dynamic, each cell type, tissue and organ system expressing an ensemble of transcript isoforms that give rise to substantial diversity. We identified new genes, transcripts, and proteins using ...