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The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones

We have developed a comprehensive resource devoted to biologists wanting to optimize the use of gene trap clones in their experiments. We have processed 300 602 such clones from both public and private projects to generate 28 199 ‘UniTraps’, i.e. distinct collections of unambiguous insertions at the...

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Detalles Bibliográficos
Autores principales: Roma, Guglielmo, Sardiello, Marco, Cobellis, Gilda, Cruz, Pedro, Lago, Giampiero, Sanges, Remo, Stupka, Elia
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2008
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238955/
https://www.ncbi.nlm.nih.gov/pubmed/17942430
http://dx.doi.org/10.1093/nar/gkm825
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author Roma, Guglielmo
Sardiello, Marco
Cobellis, Gilda
Cruz, Pedro
Lago, Giampiero
Sanges, Remo
Stupka, Elia
author_facet Roma, Guglielmo
Sardiello, Marco
Cobellis, Gilda
Cruz, Pedro
Lago, Giampiero
Sanges, Remo
Stupka, Elia
author_sort Roma, Guglielmo
collection PubMed
description We have developed a comprehensive resource devoted to biologists wanting to optimize the use of gene trap clones in their experiments. We have processed 300 602 such clones from both public and private projects to generate 28 199 ‘UniTraps’, i.e. distinct collections of unambiguous insertions at the same subgenic region of annotated genes. The UniTrap resource contains data relative to 9583 trapped genes, which represent 42.3% of the mouse gene content. Among the trapped genes, 7 728 have a counterpart in humans, and 677 are known to be involved in the pathogenesis of human diseases. The aim of this analysis is to provide the wet lab researchers with a comprehensive database and curated tools for (i) identifying and comparing the clones carrying a trap into the genes of interest, (ii) evaluating the severity of the mutation to the protein function in each independent trapping event and (iii) supplying complete information to perform PCR, RT-PCR and restriction experiments to verify the clone and identify the exact point of vector insertion. To share this unique resource with the scientific community, we have designed and implemented a web interface that is freely accessible at http://unitrap.cbm.fvg.it/.
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spelling pubmed-22389552008-02-12 The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones Roma, Guglielmo Sardiello, Marco Cobellis, Gilda Cruz, Pedro Lago, Giampiero Sanges, Remo Stupka, Elia Nucleic Acids Res Articles We have developed a comprehensive resource devoted to biologists wanting to optimize the use of gene trap clones in their experiments. We have processed 300 602 such clones from both public and private projects to generate 28 199 ‘UniTraps’, i.e. distinct collections of unambiguous insertions at the same subgenic region of annotated genes. The UniTrap resource contains data relative to 9583 trapped genes, which represent 42.3% of the mouse gene content. Among the trapped genes, 7 728 have a counterpart in humans, and 677 are known to be involved in the pathogenesis of human diseases. The aim of this analysis is to provide the wet lab researchers with a comprehensive database and curated tools for (i) identifying and comparing the clones carrying a trap into the genes of interest, (ii) evaluating the severity of the mutation to the protein function in each independent trapping event and (iii) supplying complete information to perform PCR, RT-PCR and restriction experiments to verify the clone and identify the exact point of vector insertion. To share this unique resource with the scientific community, we have designed and implemented a web interface that is freely accessible at http://unitrap.cbm.fvg.it/. Oxford University Press 2008-01 2007-10-16 /pmc/articles/PMC2238955/ /pubmed/17942430 http://dx.doi.org/10.1093/nar/gkm825 Text en © 2007 The Author(s) http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Articles
Roma, Guglielmo
Sardiello, Marco
Cobellis, Gilda
Cruz, Pedro
Lago, Giampiero
Sanges, Remo
Stupka, Elia
The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones
title The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones
title_full The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones
title_fullStr The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones
title_full_unstemmed The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones
title_short The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones
title_sort unitrap resource: tools for the biologist enabling optimized use of gene trap clones
topic Articles
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238955/
https://www.ncbi.nlm.nih.gov/pubmed/17942430
http://dx.doi.org/10.1093/nar/gkm825
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