Genomic standards consortium projects

Dawn Field¹, Peter Sterk², Renzo Kottmann³, J Wim De Smet⁴, Linda Amaral-Zettler⁵, Guy Cochrane⁶, James R Cole⁷, Neil Davies⁸, Peter Dawyndt⁴, George M Garrity⁹, Jack A Gilbert¹⁰, Frank Oliver Glöckner³, Lynette Hirschman¹¹, Hans-Peter Klenk¹², Rob Knight¹³, Nikos Kyrpides¹⁴, Folker Meyer¹⁵, Ilene Karsch-Mizrachi¹⁶, Norman Morrison¹⁷, Robert Robbins¹⁸, Inigo San Gil¹⁹, Susanna Sansone², Lynn Schriml²⁰, Tatiana Tatusova¹⁶, Dave Ussery²¹, Pelin Yilmaz³, Owen White²⁰, John Wooley¹⁸, Gregory Caporaso²²

Affiliations

¹ Centre for Ecology and Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, Oxfordshire, OX10 8BB, United Kingdom ; Oxford e-Research Centre, University of Oxford, Oxford, United Kingdom.
² Oxford e-Research Centre, University of Oxford, Oxford, United Kingdom.
³ Microbial Genomics Group, Max Planck Institute for Marine Microbiology, Bremen & Jacobs University Bremen, Germany.
⁴ Department of Applied Mathematics and Computer Science, Ghent University, Ghent, Belgium.
⁵ The Josephine Bay Paul Center for Comparative Molecular Biology and Evolution, Marine Biological Laboratory, Woods Hole, Massachusetts, USA.
⁶ European Molecular Biology Laboratory (EMBL) Outstation, European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom.
⁷ Center for Microbial Ecology, Michigan State University, East Lansing, Michigan, USA.
⁸ Gump South Pacific Research Station, University of California Berkeley, Moorea, French Polynesia ; Biodiversity Institute, Department of Zoology, University of Oxford, The Tinbergen Building, South Parks Road, Oxford, United Kingdom.
⁹ Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, Michigan, USA.
¹⁰ Institute for Genomic and Systems Biology, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL, USA ; Department of Ecology and Evolution, University of Chicago, 5640 South Ellis Avenue, Chicago, IL, USA.
¹¹ Information Technology Center, The MITRE Corporation, Bedford, Massachusetts, USA.
¹² DSMZ - German Collection of Microorganisms and Cell Cultures GmbH, Braunschweig, Germany.
¹³ Howard Hughes Medical Institute, and BioFrontiers Institute, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, USA.
¹⁴ DOE Joint Genome Institute, Walnut Creek, California, USA.
¹⁵ Institute for Genomic and Systems Biology, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL, USA ; Computation Institute, University of Chicago, Chicago, Illinois, USA.
¹⁶ National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA.
¹⁷ University of Manchester, Oxford Road, Manchester, United Kingdom.
¹⁸ University of California San Diego, La Jolla, California USA.
¹⁹ LTER Network Office, Department of Biology, University of New Mexico, Albuquerque, New Mexico, USA.
²⁰ Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA.
²¹ DOE Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA.
²² Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, USA .

PMID: 25197446
PMCID: PMC4148985
DOI: 10.4056/sigs.5559680

Genomic standards consortium projects

Dawn Field et al. Stand Genomic Sci. 2014.

. 2014 Feb 15;9(3):599-601.

doi: 10.4056/sigs.5559680. eCollection 2014 Jun 15.

Authors

Affiliations

¹ Centre for Ecology and Hydrology, Maclean Building, Benson Lane, Crowmarsh Gifford, Wallingford, Oxfordshire, OX10 8BB, United Kingdom ; Oxford e-Research Centre, University of Oxford, Oxford, United Kingdom.
² Oxford e-Research Centre, University of Oxford, Oxford, United Kingdom.
³ Microbial Genomics Group, Max Planck Institute for Marine Microbiology, Bremen & Jacobs University Bremen, Germany.
⁴ Department of Applied Mathematics and Computer Science, Ghent University, Ghent, Belgium.
⁵ The Josephine Bay Paul Center for Comparative Molecular Biology and Evolution, Marine Biological Laboratory, Woods Hole, Massachusetts, USA.
⁶ European Molecular Biology Laboratory (EMBL) Outstation, European Bioinformatics Institute (EBI), Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom.
⁷ Center for Microbial Ecology, Michigan State University, East Lansing, Michigan, USA.
⁸ Gump South Pacific Research Station, University of California Berkeley, Moorea, French Polynesia ; Biodiversity Institute, Department of Zoology, University of Oxford, The Tinbergen Building, South Parks Road, Oxford, United Kingdom.
⁹ Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, Michigan, USA.
¹⁰ Institute for Genomic and Systems Biology, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL, USA ; Department of Ecology and Evolution, University of Chicago, 5640 South Ellis Avenue, Chicago, IL, USA.
¹¹ Information Technology Center, The MITRE Corporation, Bedford, Massachusetts, USA.
¹² DSMZ - German Collection of Microorganisms and Cell Cultures GmbH, Braunschweig, Germany.
¹³ Howard Hughes Medical Institute, and BioFrontiers Institute, and Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado, USA.
¹⁴ DOE Joint Genome Institute, Walnut Creek, California, USA.
¹⁵ Institute for Genomic and Systems Biology, Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL, USA ; Computation Institute, University of Chicago, Chicago, Illinois, USA.
¹⁶ National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA.
¹⁷ University of Manchester, Oxford Road, Manchester, United Kingdom.
¹⁸ University of California San Diego, La Jolla, California USA.
¹⁹ LTER Network Office, Department of Biology, University of New Mexico, Albuquerque, New Mexico, USA.
²⁰ Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD, USA.
²¹ DOE Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA.
²² Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, USA .

PMID: 25197446
PMCID: PMC4148985
DOI: 10.4056/sigs.5559680

Abstract

The Genomic Standards Consortium (GSC) is an open-membership community that was founded in 2005 to work towards the development, implementation and harmonization of standards in the field of genomics. Starting with the defined task of establishing a minimal set of descriptions the GSC has evolved into an active standards-setting body that currently has 18 ongoing projects, with additional projects regularly proposed from within and outside the GSC. Here we describe our recently enacted policy for proposing new activities that are intended to be taken on by the GSC, along with the template for proposing such new activities.

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References

1. Field D, Garrity G, Gray T, Morrison N, Selengut J, Sterk P, Tatusova T, Thomson N, Allen MJ, Angiuoli SV, et al. The minimum information about a genome sequence (MIGS) specification. Nat Biotechnol 2008; 26:541-547 10.1038/nbt1360 - DOI - PMC - PubMed
1. Yilmaz P, Kottmann R, Field D, Knight R, Cole JR, Amaral-Zettler L, Gilbert JA, Karsch-Mizrachi I, Johnston A, Cochrane G, et al. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol 2011; 29:415-420 10.1038/nbt.1823 - DOI - PMC - PubMed
1. Field D, Amaral-Zettler L, Cochrane G, Cole JR, Dawyndt P, Garrity GM, Gilbert J, Glockner FO, Hirschman L, Karsch-Mizrachi I, et al. PLoS Biol 2011; 9:e1001088 10.1371/journal.pbio.1001088 - DOI - PMC - PubMed

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Genomic standards consortium projects

Affiliations

Genomic standards consortium projects

Authors

Affiliations

Abstract

References

LinkOut - more resources

Full Text Sources

Other Literature Sources

Research Materials