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    A promoter-level mammalian expression atlas

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    Author
    FANTOM Consortium; RIKEN PMI; CLST (DGT)
    Date
    2014
    Abstract
    Regulated transcription controls the diversity, developmental pathways and spatial organization of the hundreds of cell types that make up a mammal. Using single-molecule cDNA sequencing, we mapped transcription start sites (TSSs) and their usage in human and mouse primary cells, cell lines and tissues to produce a comprehensive overview of mammalian gene expression across the human body. We find that few genes are truly ‘housekeeping’, whereas many mammalian promoters are composite entities composed of several closely separated TSSs, with independent cell-type-specific expression profiles. TSSs specific to different cell types evolve at different rates, whereas promoters of broadly expressed genes are the most conserved. Promoter-based expression analysis reveals key transcription factors defining cell states and links them to binding-site motifs. The functions of identified novel transcripts can be predicted by coexpression and sample ontology enrichment analyses. The functional annotation of the mammalian genome 5 (FANTOM5) project provides comprehensive expression profiles and functional annotation of mammalian cell-type-specific transcriptomes with wide applications in biomedical research.
    Citation
    FANTOM Consortium, RIKEN PMI and CLST (DGT). "A promoter-level mammalian expression atlas." Nature, 507, (2014) Nature Publishing Group: 462-470. https://doi.org/10.1038/nature13182.
    Published Version
    https://doi.org/10.1038/nature13182
    Type
    Journal article
    Publisher
    Nature Publishing Group
    Citable link to this page
    https://hdl.handle.net/1911/96593
    Rights
    This is an author's peer-reviewed final manuscript, as accepted by the publisher. The published article is copyrighted by the Nature Publishing Group.
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    • Biochemistry and Cell Biology Publications [118]
    • Faculty Publications [4988]

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    Home | FAQ | Contact Us | Privacy Notice | Accessibility Statement
    Managed by the Digital Scholarship Services at Fondren Library, Rice University
    Physical Address: 6100 Main Street, Houston, Texas 77005
    Mailing Address: MS-44, P.O.BOX 1892, Houston, Texas 77251-1892
    Site Map