The RIKEN Mouse Transcriptome: Lessons Learned and Implications for the Regulation of Immune Reactions

Research output: Chapter in Book/Report/Conference proceedingChapter


Notably, the technology and analysis methods of the RIKEN mouse full-length cDNA project have contributed a lot to the capture of the transcriptional output of the mouse genome and the description of its combinatorial nature. However, one corollary of this large-scale transcript resource is the dichotomy of vast and missing information. As such, the transcriptional and translational output of yet unknown size following non-canonical principles remains to be established and interpreted. The importance of identifying immune-related transcripts and establishing their molecular functions in context of complex immune system diseases is clear: knowledge about the transcriptome can advance the understanding of immune system regulation. Deciphering the logic of transcriptomes is critical for understanding the ontogeny and effector functions of immune cells, but it is not sufficient. The next challenge will lie in the combined sampling and integrated analysis of genomic elements, transcripts, proteins and metabolites.

Original languageEnglish
Title of host publicationDecoding the Genomic Control of Immune Reactions
Number of pages13
ISBN (Electronic)9780470062128
ISBN (Print)9780470027554
Publication statusPublished - Mar 16 2007


  • Alternative splicing and protein functions
  • Cap Analysis Gene Expression (CAGE) and Gene Identification Signature (GIS)
  • Full-length cDNAs in combination with CAGE analysis
  • RIKEN Mouse Encyclopedia full-length cDNA project and FANTOM
  • Translational variation and gene expression regulation

ASJC Scopus subject areas

  • Medicine(all)
  • Immunology and Microbiology(all)

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