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The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse.

Gene trapping is a method of generating murine embryonic stem (ES) cell lines containing insertional mutations in known and novel genes. A number of international groups have used this approach to create sizeable public cell line repositories available to the scientific community for the generation of mutant mouse strains. The major gene trapping groups worldwide have recently joined together to centralize access to all publicly available gene trap lines by developing a user-oriented Website for the International Gene Trap Consortium (IGTC). This collaboration provides an impressive public informatics resource comprising approximately 45 000 well-characterized ES cell lines which currently represent approximately 40% of known mouse genes, all freely available for the creation of knockout mice on a non-collaborative basis. To standardize annotation and provide high confidence data for gene trap lines, a rigorous identification and annotation pipeline has been developed combining genomic localization and transcript alignment of gene trap sequence tags to identify trapped loci. This information is stored in a new bioinformatics database accessible through the IGTC Website interface. The IGTC Website ( allows users to browse and search the database for trapped genes, BLAST sequences against gene trap sequence tags, and view trapped genes within biological pathways. In addition, IGTC data have been integrated into major genome browsers and bioinformatics sites to provide users with outside portals for viewing this data. The development of the IGTC Website marks a major advance by providing the research community with the data and tools necessary to effectively use public gene trap resources for the large-scale characterization of mammalian gene function.

Pubmed ID: 16381950


  • Nord AS
  • Chang PJ
  • Conklin BR
  • Cox AV
  • Harper CA
  • Hicks GG
  • Huang CC
  • Johns SJ
  • Kawamoto M
  • Liu S
  • Meng EC
  • Morris JH
  • Rossant J
  • Ruiz P
  • Skarnes WC
  • Soriano P
  • Stanford WL
  • Stryke D
  • von Melchner H
  • Wurst W
  • Yamamura K
  • Young SG
  • Babbitt PC
  • Ferrin TE


Nucleic acids research

Publication Data

January 1, 2006

Associated Grants

  • Agency: NCRR NIH HHS, Id: P41 RR01081
  • Agency: NHLBI NIH HHS, Id: U01 HL66600
  • Agency: Wellcome Trust, Id:

Mesh Terms

  • Animals
  • Cell Line
  • Chromosome Mapping
  • Databases, Nucleic Acid
  • Embryo, Mammalian
  • International Cooperation
  • Internet
  • Mice
  • Mice, Knockout
  • Mutagenesis, Insertional
  • RNA, Messenger
  • Systems Integration
  • User-Computer Interface