Published February 1, 2019
| Published
Journal Article
Open
Annotation of gene product function from high-throughput studies using the Gene Ontology
- Creators
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Attrill, Helen
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Gaudet, Pascale
- Huntley, Rachael P.
- Lovering, Ruth C.
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Engel, Stacia R.
- Poux, Sylvain
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Van Auken, Kimberly M.
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Georghiou, George
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Chibucos, Marcus C.
- Berardini, Tanya Z.
- Wood, Valerie
- Drabkin, Harold
- Fey, Petra
- Garmiri, Penelope
- Harris, Midori A.
- Sawford, Tony
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Reiser, Leonore
- Tauber, Rebecca
- Toro, Sabrina
- Gene Ontology Consortium
Abstract
High-throughput studies constitute an essential and valued source of information for researchers. However, high-throughput experimental workflows are often complex, with multiple data sets that may contain large numbers of false positives. The representation of high-throughput data in the Gene Ontology (GO) therefore presents a challenging annotation problem, when the overarching goal of GO curation is to provide the most precise view of a gene's role in biology. To address this, representatives from annotation teams within the GO Consortium reviewed high-throughput data annotation practices. We present an annotation framework for high-throughput studies that will facilitate good standards in GO curation and, through the use of new high-throughput evidence codes, increase the visibility of these annotations to the research community.
Additional Information
© 2019 The Author(s). Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited. Received: 30 October 2018; Revision Received: 21 December 2018; Accepted: 08 January 2019; Published: 01 February 2019. We would like to thank Robin Antrobus (Cambridge Institute for Medical Research, University of Cambridge, UK) and Stephanie Mohr (Drosophila RNAi Screening Center/Transgenic RNAi Project Functional Genomics Resources, Harvard Medical School, USA) for their invaluable advice on high-throughput technical standards. Funding: UK Medical Research Council (MR/N030117/1 funds H.A.); US National Institutes of Health, National Human Genome Research Institute (U41 HG000739 to FlyBase); State Secretariat for Education, Research and Innovation (Swiss-Prot group); British Heart Foundation (RG/13/5/30112 funds R.P.H. and R.C.L.); Parkinson's UK (G-1307 to R.C.L.); National Institute for Health Research, University College London Hospitals Biomedical Research Centre (R.P.H. and R.C.L.); National Human Genome Research Institute (U41 HG001315 to Saccharomyces Genome Database); National Eye Institute (UniProt Consortium); National Human Genome Research Institute (UniProt Consortium); National Heart, Lung, and Blood Institute (UniProt Consortium); National Institute of Allergy and Infectious Diseases (UniProt Consortium); National Institute of Diabetes and Digestive and Kidney Diseases (UniProt Consortium); National Institute of General Medical Sciences (UniProt Consortium); National Institute of Mental Health of the National Institutes of Health, National Human Genome Research Institute (U41 HG007822 and U41 HG002273 to UniProt Consortium); National Institute of General Medical Sciences (R01GM080646, P20GM103446 and U01GM120953 to UniProt Consortium); Biotechnology and Biological Sciences Research Council (BB/M011674/1); British Heart Foundation (RG/13/5/30112); State Secretariat for Education, Research and Innovation; European Molecular Biology Laboratory core funds; National Human Genome Research Institute (U41 HG002223 to WormBase); National Science Foundation Division of Biological Infrastructure (1458400 to Evidence and Conclusion Ontology); The Arabidopsis Information Resource (TAIR) is funded by academic institutional, corporate, and individual subscriptions. TAIR is administered by the 501(c)(3) non-profit Phoenix Bioinformatics. UK Wellcome Trust (104967/Z/14/Z to PomBase); National Human Genome Research Institute (U41 HG002273 and U41 HG000330 to H.D.); National Institute of General Medical Sciences (GM080646 funds H.D., ); National Institute of General Medical Sciences (GM064426 and GM087371 to dictyBase); National Human Genome Research Institute (U41 HG002659 to Zebrafish Information Network); NHGRI (U41 HG02273 to Gene Ontology resource). Conflict of interest. None declared.Attached Files
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Additional details
- PMCID
- PMC6355445
- Eprint ID
- 92819
- Resolver ID
- CaltechAUTHORS:20190211-083328204
- Medical Research Council (UK)
- MR/N030117/1
- NIH
- U41 HG000739
- State Secretariat for Education, Research and Innovation (SER)
- British Heart Foundation
- RG/13/5/30112
- Parkinson's UK
- G-1307
- University College London
- NIH
- U41 HG001315
- National Eye Institute
- National Human Genome Research Institute
- National Heart, Lung, and Blood Institute
- National Institute of Allergy and Infectious Diseases
- National Institute of Diabetes and Digestive and Kidney Diseases
- National Institute of General Medical Sciences
- NIH
- U41 HG007822
- NIH
- U41 HG002273
- NIH
- R01GM080646
- NIH
- P20GM103446
- NIH
- U01GM120953
- Biotechnology and Biological Sciences Research Council (BBSRC)
- BB/M011674/1
- British Heart Foundation
- European Molecular Biology Laboratory (EMBL)
- NIH
- U41 HG002223
- NSF
- DBI-1458400
- Arabidopsis Information Resource (TAIR)
- Wellcome Trust
- 104967/Z/14/Z
- NIH
- U41 HG000330
- NIH
- GM080646
- NIH
- GM064426
- NIH
- GM087371
- NIH
- U41 HG002659
- Created
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2019-02-12Created from EPrint's datestamp field
- Updated
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2021-11-16Created from EPrint's last_modified field