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  • Phosphoregulators: Protein Kinases and Protein Phosphatases of Mouse

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    Author(s)
    Forrest, Alistair R. R.
    Ravasi, Timothy
    Taylor, Darrin
    Huber, Thomas
    Hume, David
    RIKEN GER Group
    GSL Members
    Grimmond, Sean
    Griffith University Author(s)
    Forrest, Alistair RR.
    Year published
    2003
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    Abstract
    With the completion of the human and mouse genome sequences, the task now turns to identifying their encoded transcripts and assigning gene function. In this study, we have undertaken a computational approach to identify and classify all of the protein kinases and phosphatases present in the mouse gene complement. A nonredundant set of these sequences was produced by mining Ensembl gene predictions and publicly available cDNA sequences with a panel of InterPro domains. This approach identified 561 candidate protein kinases and 162 candidate protein phosphatases. This cohort was then analyzed using TribeMCL protein sequence ...
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    With the completion of the human and mouse genome sequences, the task now turns to identifying their encoded transcripts and assigning gene function. In this study, we have undertaken a computational approach to identify and classify all of the protein kinases and phosphatases present in the mouse gene complement. A nonredundant set of these sequences was produced by mining Ensembl gene predictions and publicly available cDNA sequences with a panel of InterPro domains. This approach identified 561 candidate protein kinases and 162 candidate protein phosphatases. This cohort was then analyzed using TribeMCL protein sequence similarity clustering followed by CLUSTALV alignment and hierarchical tree generation. This approach allowed us to (1) distinguish between true members of the protein kinase and phosphatase families and enzymes of related biochemistry, (2) determine the structure of the families, and (3) suggest functions for previously uncharacterized members. The classifications obtained by this approach were in good agreement with previous schemes and allowed us to demonstrate domain associations with a number of clusters. Finally, we comment on the complementary nature of cDNA and genome-based gene detection and the impact of the FANTOM2 transcriptome project.
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    Journal Title
    Genome Research
    Volume
    13
    Issue
    6B
    DOI
    https://doi.org/10.1101/gr.954803
    Copyright Statement
    © 2003 Cold Spring Harbor Laboratory Press. The attached file is reproduced here in accordance with the copyright policy of the publisher. Please refer to the journal's website for access to the definitive, published version.
    Subject
    Biological Sciences
    Medical and Health Sciences
    Publication URI
    http://hdl.handle.net/10072/21722
    Collection
    • Journal articles

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