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Nord, A.S.* ; Chang, P.J.* ; Conklin, B.R.* ; Cox, A.V.* ; Harper, C.A.* ; Hicks, G.G.* ; Huang, C.C.* ; Johns, S.J.* ; Kawamoto, M.* ; Liu, S.* ; Meng, E.C.* ; Morris, J.H.* ; Rossant, J.* ; Ruiz, P.* ; Skarnes, W.C.* ; Soriano, P.* ; Stanford, W.L.* ; Stryke, D.* ; von, Melchner, H.* ; Wurst, W. ; Yamamura, K.* ; Young, S.G.* ; Babbitt, P.C.* ; Ferrin, T.E.

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

Nucleic Acids Res. 34, D642-D648 (2006)
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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 (www.genetrap.org) 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.
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Publication type Article: Journal article
Document type Scientific Article
Keywords EMBRYONIC STEM-CELLS; FUNCTIONAL GENOMICS; MICE; RESOURCE; MUTAGENESIS; DATABASE; INFORMATION; BROWSER; SITE; TOOL
Language english
Publication Year 2006
HGF-reported in Year 0
ISSN (print) / ISBN 0305-1048
e-ISSN 1362-4962
Journal Nucleic Acids Research
Quellenangaben Volume: 34, Issue: SI, Pages: D642-D648 Article Number: , Supplement: ,
Publisher Oxford University Press
Reviewing status Peer reviewed
Institute(s) Institute of Developmental Genetics (IDG)
POF-Topic(s) 30204 - Cell Programming and Repair
Research field(s) Genetics and Epidemiology
PSP Element(s) G-500500-001
PubMed ID 16381950
DOI 10.1093/nar/gkj097
WOS ID 000239307700136
Erfassungsdatum 2006-04-06
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