The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation · the IMPC consortium
International audience The International Mouse Phenotyping Consortium (IMPC) is building a catalogue of mammalian gene function by producing and phenotyping a knockout mouse line for every protein-coding gene. To date, the IMPC has generated and characterised 5186 mutant lines. One-third of the line...
Published in: | Conservation Genetics |
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HAL CCSD
2018
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Online Access: | https://hal.archives-ouvertes.fr/hal-02361601 https://hal.archives-ouvertes.fr/hal-02361601/document https://hal.archives-ouvertes.fr/hal-02361601/file/10592_2018_Article_1072.pdf https://doi.org/10.1007/s10592-018-1072-9 |
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ftccsdartic:oai:HAL:hal-02361601v1 2023-05-15T18:01:47+02:00 The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation · the IMPC consortium Muñoz-Fuentes, Violeta Cacheiro, Pilar Meehan, Terrence, Aguilar-Pimentel, Juan Antonio Brown, Steve, Flenniken, Ann, Flicek, Paul Galli, Antonella Mashhadi, Hamed Haseli Hrabě De Angelis, Martin Kim, Jong Kyoung Lloyd, K C Kent McKerlie, Colin Morgan, Hugh Murray, Stephen, Nutter, Lauryl, Reilly, Patrick, Seavitt, John, Seong, Je Kyung Simon, Michelle Wardle-Jones, Hannah Mallon, Ann-Marie Smedley, Damian Parkinson, Helen Queen Mary University of London (QMUL) German Research Center for Environmental Health - Helmholtz Center München (GmbH) European Bioinformatics Institute Hinxton (EMBL-EBI) EMBL Heidelberg The Wellcome Trust Sanger Institute Cambridge Institute for Experimental Genetics GSF - National Research Center for Environment and Health Medical Research Council Harwell (Mammalian Genetics Unit and Mary Lyon Centre) Medical Research Counc European Bioinformatics Institute 2018 https://hal.archives-ouvertes.fr/hal-02361601 https://hal.archives-ouvertes.fr/hal-02361601/document https://hal.archives-ouvertes.fr/hal-02361601/file/10592_2018_Article_1072.pdf https://doi.org/10.1007/s10592-018-1072-9 en eng HAL CCSD Springer Verlag info:eu-repo/semantics/altIdentifier/doi/10.1007/s10592-018-1072-9 info:eu-repo/semantics/altIdentifier/pmid/30100824 hal-02361601 https://hal.archives-ouvertes.fr/hal-02361601 https://hal.archives-ouvertes.fr/hal-02361601/document https://hal.archives-ouvertes.fr/hal-02361601/file/10592_2018_Article_1072.pdf doi:10.1007/s10592-018-1072-9 PUBMED: 30100824 PUBMEDCENTRAL: PMC6061128 info:eu-repo/semantics/OpenAccess ISSN: 1566-0621 EISSN: 1572-9737 Conservation Genetics https://hal.archives-ouvertes.fr/hal-02361601 Conservation Genetics, Springer Verlag, 2018, 3 (4), pp.995-1005. ⟨10.1007/s10592-018-1072-9⟩ Loss-of-function Endangered species Cheetah Non-model species Panda Polar bear Phenotype Wolf Essential genes IMPC Knockout Mouse [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] info:eu-repo/semantics/article Journal articles 2018 ftccsdartic https://doi.org/10.1007/s10592-018-1072-9 2021-01-23T23:43:21Z International audience The International Mouse Phenotyping Consortium (IMPC) is building a catalogue of mammalian gene function by producing and phenotyping a knockout mouse line for every protein-coding gene. To date, the IMPC has generated and characterised 5186 mutant lines. One-third of the lines have been found to be non-viable and over 300 new mouse models of human disease have been identified thus far. While current bioinformatics efforts are focused on translating results to better understand human disease processes, IMPC data also aids understanding genetic function and processes in other species. Here we show, using gorilla genomic data, how genes essential to development in mice can be used to help assess the potentially deleterious impact of gene variants in other species. This type of analyses could be used to select optimal breeders in endangered species to maintain or increase fitness and avoid variants associated to impaired-health phenotypes or loss-of-function mutations in genes of critical importance. We also show, using selected examples from various mammal species, how IMPC data can aid in the identification of candidate genes for studying a condition of interest, deliver information about the mechanisms involved, or support predictions for the function of genes that may play a role in adaptation. With genotyping costs decreasing and the continued improvements of bioinformatics tools, the analyses we demonstrate can be routinely applied. Article in Journal/Newspaper polar bear Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) Conservation Genetics 19 4 995 1005 |
institution |
Open Polar |
collection |
Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) |
op_collection_id |
ftccsdartic |
language |
English |
topic |
Loss-of-function Endangered species Cheetah Non-model species Panda Polar bear Phenotype Wolf Essential genes IMPC Knockout Mouse [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] |
spellingShingle |
Loss-of-function Endangered species Cheetah Non-model species Panda Polar bear Phenotype Wolf Essential genes IMPC Knockout Mouse [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] Muñoz-Fuentes, Violeta Cacheiro, Pilar Meehan, Terrence, Aguilar-Pimentel, Juan Antonio Brown, Steve, Flenniken, Ann, Flicek, Paul Galli, Antonella Mashhadi, Hamed Haseli Hrabě De Angelis, Martin Kim, Jong Kyoung Lloyd, K C Kent McKerlie, Colin Morgan, Hugh Murray, Stephen, Nutter, Lauryl, Reilly, Patrick, Seavitt, John, Seong, Je Kyung Simon, Michelle Wardle-Jones, Hannah Mallon, Ann-Marie Smedley, Damian Parkinson, Helen The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation · the IMPC consortium |
topic_facet |
Loss-of-function Endangered species Cheetah Non-model species Panda Polar bear Phenotype Wolf Essential genes IMPC Knockout Mouse [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM] |
description |
International audience The International Mouse Phenotyping Consortium (IMPC) is building a catalogue of mammalian gene function by producing and phenotyping a knockout mouse line for every protein-coding gene. To date, the IMPC has generated and characterised 5186 mutant lines. One-third of the lines have been found to be non-viable and over 300 new mouse models of human disease have been identified thus far. While current bioinformatics efforts are focused on translating results to better understand human disease processes, IMPC data also aids understanding genetic function and processes in other species. Here we show, using gorilla genomic data, how genes essential to development in mice can be used to help assess the potentially deleterious impact of gene variants in other species. This type of analyses could be used to select optimal breeders in endangered species to maintain or increase fitness and avoid variants associated to impaired-health phenotypes or loss-of-function mutations in genes of critical importance. We also show, using selected examples from various mammal species, how IMPC data can aid in the identification of candidate genes for studying a condition of interest, deliver information about the mechanisms involved, or support predictions for the function of genes that may play a role in adaptation. With genotyping costs decreasing and the continued improvements of bioinformatics tools, the analyses we demonstrate can be routinely applied. |
author2 |
Queen Mary University of London (QMUL) German Research Center for Environmental Health - Helmholtz Center München (GmbH) European Bioinformatics Institute Hinxton (EMBL-EBI) EMBL Heidelberg The Wellcome Trust Sanger Institute Cambridge Institute for Experimental Genetics GSF - National Research Center for Environment and Health Medical Research Council Harwell (Mammalian Genetics Unit and Mary Lyon Centre) Medical Research Counc European Bioinformatics Institute |
format |
Article in Journal/Newspaper |
author |
Muñoz-Fuentes, Violeta Cacheiro, Pilar Meehan, Terrence, Aguilar-Pimentel, Juan Antonio Brown, Steve, Flenniken, Ann, Flicek, Paul Galli, Antonella Mashhadi, Hamed Haseli Hrabě De Angelis, Martin Kim, Jong Kyoung Lloyd, K C Kent McKerlie, Colin Morgan, Hugh Murray, Stephen, Nutter, Lauryl, Reilly, Patrick, Seavitt, John, Seong, Je Kyung Simon, Michelle Wardle-Jones, Hannah Mallon, Ann-Marie Smedley, Damian Parkinson, Helen |
author_facet |
Muñoz-Fuentes, Violeta Cacheiro, Pilar Meehan, Terrence, Aguilar-Pimentel, Juan Antonio Brown, Steve, Flenniken, Ann, Flicek, Paul Galli, Antonella Mashhadi, Hamed Haseli Hrabě De Angelis, Martin Kim, Jong Kyoung Lloyd, K C Kent McKerlie, Colin Morgan, Hugh Murray, Stephen, Nutter, Lauryl, Reilly, Patrick, Seavitt, John, Seong, Je Kyung Simon, Michelle Wardle-Jones, Hannah Mallon, Ann-Marie Smedley, Damian Parkinson, Helen |
author_sort |
Muñoz-Fuentes, Violeta |
title |
The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation · the IMPC consortium |
title_short |
The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation · the IMPC consortium |
title_full |
The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation · the IMPC consortium |
title_fullStr |
The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation · the IMPC consortium |
title_full_unstemmed |
The International Mouse Phenotyping Consortium (IMPC): a functional catalogue of the mammalian genome that informs conservation · the IMPC consortium |
title_sort |
international mouse phenotyping consortium (impc): a functional catalogue of the mammalian genome that informs conservation · the impc consortium |
publisher |
HAL CCSD |
publishDate |
2018 |
url |
https://hal.archives-ouvertes.fr/hal-02361601 https://hal.archives-ouvertes.fr/hal-02361601/document https://hal.archives-ouvertes.fr/hal-02361601/file/10592_2018_Article_1072.pdf https://doi.org/10.1007/s10592-018-1072-9 |
genre |
polar bear |
genre_facet |
polar bear |
op_source |
ISSN: 1566-0621 EISSN: 1572-9737 Conservation Genetics https://hal.archives-ouvertes.fr/hal-02361601 Conservation Genetics, Springer Verlag, 2018, 3 (4), pp.995-1005. ⟨10.1007/s10592-018-1072-9⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1007/s10592-018-1072-9 info:eu-repo/semantics/altIdentifier/pmid/30100824 hal-02361601 https://hal.archives-ouvertes.fr/hal-02361601 https://hal.archives-ouvertes.fr/hal-02361601/document https://hal.archives-ouvertes.fr/hal-02361601/file/10592_2018_Article_1072.pdf doi:10.1007/s10592-018-1072-9 PUBMED: 30100824 PUBMEDCENTRAL: PMC6061128 |
op_rights |
info:eu-repo/semantics/OpenAccess |
op_doi |
https://doi.org/10.1007/s10592-018-1072-9 |
container_title |
Conservation Genetics |
container_volume |
19 |
container_issue |
4 |
container_start_page |
995 |
op_container_end_page |
1005 |
_version_ |
1766171294162747392 |