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MouseIndelDB: a database integrating genomic indel polymorphisms that distinguish mouse strains

  1. Author:
    Akagi, K.
    Stephens, R. M.
    Li, J. F.
    Evdokimov, E.
    Kuehn, M. R.
    Volfovsky, N.
    Symer, D. E.

  2. Author Address

    [Akagi, Keiko; Li, Jingfeng; Symer, David E.] Ohio State Univ, Ctr Comprehens Canc, Dept Mol Virol Immunol & Med Genet, Columbus, OH 43210 USA. [Akagi, Keiko] NCI, Mouse Canc Genet Program, Ctr Canc Res, Frederick, MD 21702 USA. [Stephens, Robert M.; Volfovsky, Natalia] SAIC Frederick Inc, NCI Frederick, Adv Biomed Comp Ctr, Informat Syst Program, Frederick, MD 21702 USA. [Li, Jingfeng; Symer, David E.] NCI, Basic Res Lab, Ctr Canc Res, Frederick, MD 21702 USA. [Evdokimov, Evgenji; Kuehn, Michael R.] NCI, Lab Prot Dynam & Signaling, Ctr Canc Res, Frederick, MD 21702 USA. [Symer, David E.] NCI, Lab Biochem & Mol Biol, Ctr Canc Res, Frederick, MD 21702 USA. [Symer, David E.] Ohio State Univ, Ctr Comprehens Canc, Human Canc Genet Program, Columbus, OH 43210 USA. [Symer, David E.] Ohio State Univ, Ctr Comprehens Canc, Dept Internal Med, Columbus, OH 43210 USA. [Symer, David E.] Ohio State Univ, Ctr Comprehens Canc, Dept Biomed Informat, Columbus, OH 43210 USA.;Symer, DE, Ohio State Univ, Ctr Comprehens Canc, Dept Mol Virol Immunol & Med Genet, Columbus, OH 43210 USA.;stephensr@mail.nih.gov david.symer@osumc.edu
    1. Year: 2010
    2. Date: Jan
    3. Epub Date: 11/26/2009
  2. Journal: Nucleic Acids Research
    1. 38
    2. Database issue
    3. Pages: D600-D606
  4. Type of Article: Article
  5. ISSN: 0305-1048
  1. Abstract:

    MouseIndelDB is an integrated database resource containing thousands of previously unreported mouse genomic indel (insertion and deletion) polymorphisms ranging from similar to 100 nt to 10Kb in size. The database currently includes polymorphisms identified from our alignment of 26 million whole-genome shotgun sequence traces from four laboratory mouse strains mapped against the reference C57BL/6J genome using GMAP. They can be queried on a local level by chromosomal coordinates, nearby gene names or other genomic feature identifiers, or in bulk format using categories including mouse strain(s), class of polymorphism(s) and chromosome number. The results of such queries are presented either as a custom track on the UCSC mouse genome browser or in tabular format. We anticipate that the MouseIndelDB database will be widely useful for research in mammalian genetics, genomics, and evolutionary biology. Access to the MouseIndelDB database is freely available at: http://variation.osu.edu/.

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External Sources

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  2. DOI: 10.1093/nar/gkp1046
  3. PMID: 19933259
  4. PMCID: PMC2808983
  5. View record in Web of Science®
  6. WOS: 000276399100096

Library Notes

  1. Fiscal Year: FY2009-2010
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