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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...

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Autores principales: Nord, Alex S., Chang, Patricia J., Conklin, Bruce R., Cox, Antony V., Harper, Courtney A., Hicks, Geoffrey G., Huang, Conrad C., Johns, Susan J., Kawamoto, Michiko, Liu, Songyan, Meng, Elaine C., Morris, John H., Rossant, Janet, Ruiz, Patricia, Skarnes, William C., Soriano, Philippe, Stanford, William L., Stryke, Doug, von Melchner, Harald, Wurst, Wolfgang, Yamamura, Ken-ichi, Young, Stephen G., Babbitt, Patricia C., Ferrin, Thomas E.
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2006
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347459/
https://www.ncbi.nlm.nih.gov/pubmed/16381950
http://dx.doi.org/10.1093/nar/gkj097
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author Nord, Alex S.
Chang, Patricia J.
Conklin, Bruce R.
Cox, Antony V.
Harper, Courtney A.
Hicks, Geoffrey G.
Huang, Conrad C.
Johns, Susan J.
Kawamoto, Michiko
Liu, Songyan
Meng, Elaine C.
Morris, John H.
Rossant, Janet
Ruiz, Patricia
Skarnes, William C.
Soriano, Philippe
Stanford, William L.
Stryke, Doug
von Melchner, Harald
Wurst, Wolfgang
Yamamura, Ken-ichi
Young, Stephen G.
Babbitt, Patricia C.
Ferrin, Thomas E.
author_facet Nord, Alex S.
Chang, Patricia J.
Conklin, Bruce R.
Cox, Antony V.
Harper, Courtney A.
Hicks, Geoffrey G.
Huang, Conrad C.
Johns, Susan J.
Kawamoto, Michiko
Liu, Songyan
Meng, Elaine C.
Morris, John H.
Rossant, Janet
Ruiz, Patricia
Skarnes, William C.
Soriano, Philippe
Stanford, William L.
Stryke, Doug
von Melchner, Harald
Wurst, Wolfgang
Yamamura, Ken-ichi
Young, Stephen G.
Babbitt, Patricia C.
Ferrin, Thomas E.
author_sort Nord, Alex S.
collection PubMed
description 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 ∼45 000 well-characterized ES cell lines which currently represent ∼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.
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spelling pubmed-13474592006-01-25 The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse Nord, Alex S. Chang, Patricia J. Conklin, Bruce R. Cox, Antony V. Harper, Courtney A. Hicks, Geoffrey G. Huang, Conrad C. Johns, Susan J. Kawamoto, Michiko Liu, Songyan Meng, Elaine C. Morris, John H. Rossant, Janet Ruiz, Patricia Skarnes, William C. Soriano, Philippe Stanford, William L. Stryke, Doug von Melchner, Harald Wurst, Wolfgang Yamamura, Ken-ichi Young, Stephen G. Babbitt, Patricia C. Ferrin, Thomas E. Nucleic Acids Res Article 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 ∼45 000 well-characterized ES cell lines which currently represent ∼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. Oxford University Press 2006-01-01 2005-12-28 /pmc/articles/PMC1347459/ /pubmed/16381950 http://dx.doi.org/10.1093/nar/gkj097 Text en © The Author 2006. Published by Oxford University Press. All rights reserved
spellingShingle Article
Nord, Alex S.
Chang, Patricia J.
Conklin, Bruce R.
Cox, Antony V.
Harper, Courtney A.
Hicks, Geoffrey G.
Huang, Conrad C.
Johns, Susan J.
Kawamoto, Michiko
Liu, Songyan
Meng, Elaine C.
Morris, John H.
Rossant, Janet
Ruiz, Patricia
Skarnes, William C.
Soriano, Philippe
Stanford, William L.
Stryke, Doug
von Melchner, Harald
Wurst, Wolfgang
Yamamura, Ken-ichi
Young, Stephen G.
Babbitt, Patricia C.
Ferrin, Thomas E.
The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse
title The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse
title_full The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse
title_fullStr The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse
title_full_unstemmed The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse
title_short The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse
title_sort international gene trap consortium website: a portal to all publicly available gene trap cell lines in mouse
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347459/
https://www.ncbi.nlm.nih.gov/pubmed/16381950
http://dx.doi.org/10.1093/nar/gkj097
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