Difference between revisions of "Task Force Data Standards and Data Access"

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=Program of Work=
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*Development of a data standard for sharing DNA and tissue information
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*Development and subsequent expansion of a global data platform for aggregating relevant data sources of genomic samples, vouchers, molecular analysis, publications, and images
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=Current Activities=
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*Developing tutorials for publishing genetic sample data on GGBN
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*Reducing bottlenecks for updating genetic sample data from providers
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*Implementation of GGBN data standard in [http://symbiota.org/docs/ Symbiota], [https://plutof.ut.ee/ Plutof] and [https://www.species360.org/products-services/zoo-aquarium-animal-management-software-2/ ZIMS].
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*Migration of GGBN institutional registry to [https://www.gbif.org/ GBIF]
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*Modifications of the GGBN data standard for environmental DNA and environmental samples, along with HTS library samples.
 +
*Performing a user review of the GGBN website to inform improvements to its data architecture.
 +
*Performing a review of GGBN’s permit fields, including any impediments to implementation by users.
 +
*Collaboration with sequencing portals to provide best practices for documentation and citation of samples and make the GGBN data standard the global standard for implementation of the Nagoya Protocol.
 +
*As part of [https://www.synthesys.info/ SYNTHESYS+] Work Package 3, developing a best practices for usage of molecular collections handbook.
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=Accomplishments=
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*[https://wiki.ggbn.org/ggbn/GGBN_Data_Standard GGBN Data Standard for Tissue and DNA]
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*Tutorials on publishing genetic sample data using the [https://www.youtube.com/watch?v=0WhK5HpXEY0&feature=emb_title Integrated Publishing Toolkit] and [https://www.youtube.com/watch?v=OuqTCM6FcJU BioCase] provider software.
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*Implementation of GGBN data standard in data management systems [https://arctosdb.org/ Arctos] and [https://www.sustain.specifysoftware.org/ Specify].
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*Implementation of a new algorithm for the taxonomic backbone in the GGBN Data Portal to provide robust counts on taxa needed for gap analysis.
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*Implementation of GGBN Data Portal [http://data.ggbn.org/ggbn_portal/usagestats/ usage statistics].
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=Related Resources=
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*[https://library.ggbn.org/share/s/E3qbuKsJSwaI67IWItXCKw The Global Genome Biodiversity Network (GGBN) Data Standard specification]
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*[https://library.ggbn.org/share/s/xslU9MqCT5mgAIfRukyk8A The Global Genome Biodiversity Network (GGBN) Data Portal]
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=Current Members=
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*Gabi Droege, Botanic Garden and Botanical Museum Berlin-Dahlem (2011-present), Chair
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*Katie Barker, Smithsonian National Museum of Natural History (2011-present)
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*Margaret Cawsey, Commonwealth Scientific and Industrial Research Organisation (CSIRO) (2014-present)
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*Jonathan Coddington, Smithsonian National Museum of Natural History (2011-present)
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*Jeremy deWaard, Centre for Biodiversity Genomics, University of Guelph (2018-present)
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*Tim Fulcher, Royal Botanic Gardens, Kew (2016-present)
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*Peter Grobe, Zoological Research Museum Alexander Koenig (2016-present)
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*Chris Hunter, China National Gene Bank/GigaScience (2018-present)
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*Lars Erik Johannessen, Natural History Museum, Oslo (2016-present)
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*Kim Labuschagne, National Zoological Gardens of South Africa (2014-present)
 +
*Chris Meyer, Smithsonian National Museum of Natural History (2011-present)
 +
*Glen Newton, Agriculture and Agri-Food Canada (2016-present)
 +
*Thomas Orrell, Smithsonian National Museum of Natural History (2011-present)
 +
*Björn Quast, Zoological Research Museum Alexander Koenig (2016-present)
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*Dmitry Schigel, Global Biodiversity Information Facility (2016-present)
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*Mike Trizna, Smithsonian Institution (2017-present)
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*Xiao Feng (Vincent) Wei, China National Gene Bank (2018-present)

Latest revision as of 15:56, 25 June 2020

Program of Work

  • Development of a data standard for sharing DNA and tissue information
  • Development and subsequent expansion of a global data platform for aggregating relevant data sources of genomic samples, vouchers, molecular analysis, publications, and images

Current Activities

  • Developing tutorials for publishing genetic sample data on GGBN
  • Reducing bottlenecks for updating genetic sample data from providers
  • Implementation of GGBN data standard in Symbiota, Plutof and ZIMS.
  • Migration of GGBN institutional registry to GBIF
  • Modifications of the GGBN data standard for environmental DNA and environmental samples, along with HTS library samples.
  • Performing a user review of the GGBN website to inform improvements to its data architecture.
  • Performing a review of GGBN’s permit fields, including any impediments to implementation by users.
  • Collaboration with sequencing portals to provide best practices for documentation and citation of samples and make the GGBN data standard the global standard for implementation of the Nagoya Protocol.
  • As part of SYNTHESYS+ Work Package 3, developing a best practices for usage of molecular collections handbook.

Accomplishments

Related Resources


Current Members

  • Gabi Droege, Botanic Garden and Botanical Museum Berlin-Dahlem (2011-present), Chair
  • Katie Barker, Smithsonian National Museum of Natural History (2011-present)
  • Margaret Cawsey, Commonwealth Scientific and Industrial Research Organisation (CSIRO) (2014-present)
  • Jonathan Coddington, Smithsonian National Museum of Natural History (2011-present)
  • Jeremy deWaard, Centre for Biodiversity Genomics, University of Guelph (2018-present)
  • Tim Fulcher, Royal Botanic Gardens, Kew (2016-present)
  • Peter Grobe, Zoological Research Museum Alexander Koenig (2016-present)
  • Chris Hunter, China National Gene Bank/GigaScience (2018-present)
  • Lars Erik Johannessen, Natural History Museum, Oslo (2016-present)
  • Kim Labuschagne, National Zoological Gardens of South Africa (2014-present)
  • Chris Meyer, Smithsonian National Museum of Natural History (2011-present)
  • Glen Newton, Agriculture and Agri-Food Canada (2016-present)
  • Thomas Orrell, Smithsonian National Museum of Natural History (2011-present)
  • Björn Quast, Zoological Research Museum Alexander Koenig (2016-present)
  • Dmitry Schigel, Global Biodiversity Information Facility (2016-present)
  • Mike Trizna, Smithsonian Institution (2017-present)
  • Xiao Feng (Vincent) Wei, China National Gene Bank (2018-present)