Now showing items 1-11 of 11

    • The balance of reproducibility, sensitivity, and specificity of lists of differentially expressed genes in microarray studies 

      Shi, Leming; Jones, Wendell D; Jensen, Roderick V; Harris, Stephen C; Perkins, Roger G; Goodsaid, Federico M; Guo, Lei; Croner, Lisa J; Boysen, Cecilie; Fang, Hong; Qian, Feng; Amur, Shashi; Bao, Wenjun; Barbacioru, Catalin C; Bertholet, Vincent; Cao, Xiaoxi M; Chu, Tzu-Ming; Collins, Patrick J; Fan, Xiao-hui; Frueh, Felix W; Fuscoe, James C; Guo, Xu; Han, Jing; Herman, Damir; Hong, Huixiao; Kawasaki, Ernest S; Li, Quan-Zhen; Luo, Yuling; Ma, Yunqing; Mei, Nan; Peterson, Ron L; Puri, Raj K; Shippy, Richard; Su, Zhenqiang; Sun, Yongming A; Sun, Hongmei; Thorn, Brett; Turpaz, Yaron; Wang, Charles; Wang, Sue J; Warrington, Janet A; Willey, James C; Wu, Jie; Xie, Qian; Zhang, Liang; Zhang, Lu; Zhong, Sheng; Wolfinger, Russell D; Tong, Weida (2008-08-12)
      Abstract Background Reproducibility is a fundamental requirement in scientific experiments. Some recent publications have claimed that microarrays are unreliable because lists of differentially expressed genes (DEGs) are ...
    • The balance of reproducibility, sensitivity, and specificity of lists of differentially expressed genes in microarray studies 

      Shi, Leming; Jones, Wendell D; Jensen, Roderick V; Harris, Stephen C; Perkins, Roger G; Goodsaid, Federico M; Guo, Lei; Croner, Lisa J; Boysen, Cecilie; Fang, Hong; Qian, Feng; Amur, Shashi; Bao, Wenjun; Barbacioru, Catalin C; Bertholet, Vincent; Cao, Xiaoxi M; Chu, Tzu-Ming; Collins, Patrick J; Fan, Xiao-hui; Frueh, Felix W; Fuscoe, James C; Guo, Xu; Han, Jing; Herman, Damir; Hong, Huixiao; Kawasaki, Ernest S; Li, Quan-Zhen; Luo, Yuling; Ma, Yunqing; Mei, Nan; Peterson, Ron L; Puri, Raj K; Shippy, Richard; Su, Zhenqiang; Sun, Yongming A; Sun, Hongmei; Thorn, Brett; Turpaz, Yaron; Wang, Charles; Wang, Sue J; Warrington, Janet A; Willey, James C; Wu, Jie; Xie, Qian; Zhang, Liang; Zhang, Lu; Zhong, Sheng; Wolfinger, Russell D; Tong, Weida (2008-08-12)
      Abstract Background Reproducibility is a fundamental requirement in scientific experiments. Some recent publications have claimed that microarrays are unreliable because lists of differentially expressed genes (DEGs) are ...
    • Differentially expressed alternatively spliced genes in Malignant Pleural Mesothelioma identified using massively parallel transcriptome sequencing 

      Dong, Lingsheng; Jensen, Roderick V; De Rienzo, Assunta; Gordon, Gavin J; Xu, Yanlong; Sugarbaker, David J; Bueno, Raphael (2009-12-31)
      Abstract Background Analyses of Expressed Sequence Tags (ESTs) databases suggest that most human genes have multiple alternative splice variants. The alternative splicing of pre-mRNA is tightly regulated during development ...
    • Differentially expressed alternatively spliced genes in Malignant Pleural Mesothelioma identified using massively parallel transcriptome sequencing 

      Dong, Lingsheng; Jensen, Roderick V; De Rienzo, Assunta; Gordon, Gavin J; Xu, Yanlong; Sugarbaker, David J; Bueno, Raphael (2009-12-31)
      Abstract Background Analyses of Expressed Sequence Tags (ESTs) databases suggest that most human genes have multiple alternative splice variants. The alternative splicing of pre-mRNA is tightly regulated during development ...
    • Differentially expressed alternatively spliced genes in Malignant Pleural Mesothelioma identified using massively parallel transcriptome sequencing 

      Dong, Lingsheng; Jensen, Roderick V; De Rienzo, Assunta; Gordon, Gavin J; Xu, Yanlong; Sugarbaker, David J; Bueno, Raphael (2009-12-31)
      Abstract Background Analyses of Expressed Sequence Tags (ESTs) databases suggest that most human genes have multiple alternative splice variants. The alternative splicing of ...
    • Gene Expression and Isoform Variation Analysis using Affymetrix Exon Arrays 

      Bemmo, Amandine; Benovoy, David; Kwan, Tony; Gaffney, Daniel J; Jensen, Roderick V; Majewski, Jacek (2008-11-07)
      Abstract Background Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, ...
    • Gene expression and isoform variation analysis using Affymetrix exon arrays 

      Bemmo, Amandine; Benovoy, David; Kwan, Tony; Gaffney, Daniel J; Jensen, Roderick V; Majewski, Jacek (2009-03-23)
      Abstract Correction to Bemmo A, Benovoy D, Kwan T, Gaffney DJ, Jensen RV, Majewski J: Gene expression and isoform variation analysis using Affymetrix Exon Arrays. BMC Genomics 2008, 9: 529.
    • Gene expression and isoform variation analysis using Affymetrix exon arrays 

      Bemmo, Amandine; Benovoy, David; Kwan, Tony; Gaffney, Daniel J; Jensen, Roderick V; Majewski, Jacek (2009-03-23)
      Abstract Correction to Bemmo A, Benovoy D, Kwan T, Gaffney DJ, Jensen RV, Majewski J: Gene expression and isoform variation analysis using Affymetrix Exon Arrays. BMC Genomics 2008, 9: 529.
    • Gene Expression and Isoform Variation Analysis using Affymetrix Exon Arrays 

      Bemmo, Amandine; Benovoy, David; Kwan, Tony; Gaffney, Daniel J; Jensen, Roderick V; Majewski, Jacek (2008-11-07)
      Abstract Background Alternative splicing and isoform level expression profiling is an emerging field of interest within genomics. Splicing sensitive microarrays, with probes targeted to individual exons or exon-junctions, ...
    • Identification of new genes in Sinorhizobium meliloti using the Genome Sequencer FLX system 

      Mao, Chunhong; Evans, Clive; Jensen, Roderick V; Sobral, Bruno WS (2008-05-02)
      Abstract Background Sinorhizobium meliloti is an agriculturally important model symbiont. There is an ongoing need to update and improve its genome annotation. In this study, we used a high-throughput pyrosequencing approach ...
    • Identification of new genes in Sinorhizobium meliloti using the Genome Sequencer FLX system 

      Mao, Chunhong; Evans, Clive; Jensen, Roderick V; Sobral, Bruno WS (2008-05-02)
      Abstract Background Sinorhizobium meliloti is an agriculturally important model symbiont. There is an ongoing need to update and improve its genome annotation. In this study, we used a high-throughput pyrosequencing approach ...