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Published February 1, 2019 | Published
Journal Article Open

Annotation of gene product function from high-throughput studies using the Gene Ontology

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.

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Created:
August 19, 2023
Modified:
October 20, 2023