Jessica Severin

Summary

Affiliation: RIKEN Brain Science Institute
Country: Japan

Publications

  1. ncbi The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications
    Toshiaki Katayama
    Database Center for Life Science, Research Organization of Information and Systems, 2 11 16 Yayoi, Bunkyo ku, Tokyo, 113 0032, Japan
    J Biomed Semantics 2:4. 2011
  2. ncbi eHive: an artificial intelligence workflow system for genomic analysis
    Jessica Severin
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK
    BMC Bioinformatics 11:240. 2010
  3. ncbi FANTOM4 EdgeExpressDB: an integrated database of promoters, genes, microRNAs, expression dynamics and regulatory interactions
    Jessica Severin
    RIKEN Omics Science Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho Tsurumi ku Yokohama, Kanagawa, 230 0045 Japan
    Genome Biol 10:R39. 2009
  4. ncbi The FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation
    Hideya Kawaji
    RIKEN Omics Science Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho Tsurumi ku Yokohama, Kanagawa, 230 0045 Japan
    Genome Biol 10:R40. 2009
  5. ncbi Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation
    Hideya Kawaji
    RIKEN Omics Science Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho, Tsurumi ku, Yokohama City, Kanagawa 230 0045, Japan
    Nucleic Acids Res 39:D856-60. 2011
  6. ncbi The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line
    Harukazu Suzuki
    RIKEN Omics Science Center, RIKEN Yokohama Institute, Kanagawa, Japan
    Nat Genet 41:553-62. 2009
  7. ncbi Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan
    Charles Plessy
    RIKEN Yokohama Institute, Omics Science Center, Yokohama, Japan
    Nat Methods 7:528-34. 2010
  8. ncbi Reconstruction of monocyte transcriptional regulatory network accompanies monocytic functions in human fibroblasts
    Takahiro Suzuki
    Omics Science Center, RIKEN Yokohama Institute, Yokohama, Kanagawa, Japan
    PLoS ONE 7:e33474. 2012

Detail Information

Publications8

  1. ncbi The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications
    Toshiaki Katayama
    Database Center for Life Science, Research Organization of Information and Systems, 2 11 16 Yayoi, Bunkyo ku, Tokyo, 113 0032, Japan
    J Biomed Semantics 2:4. 2011
    ..abstract:..
  2. ncbi eHive: an artificial intelligence workflow system for genomic analysis
    Jessica Severin
    European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge, UK
    BMC Bioinformatics 11:240. 2010
    ..The number of calculations required for this task grows approximately quadratically with the number of species. We currently support 50 species in Ensembl and we expect the number to continue to grow in the future...
  3. ncbi FANTOM4 EdgeExpressDB: an integrated database of promoters, genes, microRNAs, expression dynamics and regulatory interactions
    Jessica Severin
    RIKEN Omics Science Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho Tsurumi ku Yokohama, Kanagawa, 230 0045 Japan
    Genome Biol 10:R39. 2009
    ..This is an important resource for gene regulation in acute myeloid leukemia, monocyte/macrophage differentiation and human transcriptional networks...
  4. ncbi The FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation
    Hideya Kawaji
    RIKEN Omics Science Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho Tsurumi ku Yokohama, Kanagawa, 230 0045 Japan
    Genome Biol 10:R40. 2009
    ..In addition, data regarding chromatin status derived from ChIP-chip to elucidate the transcriptional regulatory interactions are included. Here we present these data to the research community as an integrated web resource...
  5. ncbi Update of the FANTOM web resource: from mammalian transcriptional landscape to its dynamic regulation
    Hideya Kawaji
    RIKEN Omics Science Center, RIKEN Yokohama Institute, 1 7 22 Suehiro cho, Tsurumi ku, Yokohama City, Kanagawa 230 0045, Japan
    Nucleic Acids Res 39:D856-60. 2011
    ..gsc.riken.jp/4/). Additionally, we assembled a rich set of derived analysis results including published predicted and validated regulatory interactions. Here we introduce the resource and its update after the initial release...
  6. ncbi The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line
    Harukazu Suzuki
    RIKEN Omics Science Center, RIKEN Yokohama Institute, Kanagawa, Japan
    Nat Genet 41:553-62. 2009
    ....
  7. ncbi Linking promoters to functional transcripts in small samples with nanoCAGE and CAGEscan
    Charles Plessy
    RIKEN Yokohama Institute, Omics Science Center, Yokohama, Japan
    Nat Methods 7:528-34. 2010
    ..Both of these methods allow further annotation-agnostic studies of the complex human transcriptome...
  8. ncbi Reconstruction of monocyte transcriptional regulatory network accompanies monocytic functions in human fibroblasts
    Takahiro Suzuki
    Omics Science Center, RIKEN Yokohama Institute, Yokohama, Kanagawa, Japan
    PLoS ONE 7:e33474. 2012
    ....