Crowdsourcing biocuration: The Community Assessment of Community Annotation with Ontologies (CACAO).

Autor:	Ramsey J; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America.; Center for Phage Technology, Texas A&M University, College Station, Texas, United States of America., McIntosh B; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America., Renfro D; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America., Aleksander SA; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America., LaBonte S; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America., Ross C; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America.; Center for Phage Technology, Texas A&M University, College Station, Texas, United States of America., Zweifel AE; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America., Liles N; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America., Farrar S; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America., Gill JJ; Center for Phage Technology, Texas A&M University, College Station, Texas, United States of America.; Department of Animal Science, Texas A&M University, College Station, Texas, United States of America., Erill I; Department of Biological Sciences, University of Maryland Baltimore County, Baltimore, Maryland, United States of America.; Department of Computer Science and Electrical Engineering, University of Maryland Baltimore County, Baltimore, Maryland, United States of America., Ades S; Department of Biochemistry & Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania, United States of America., Berardini TZ; The Arabidopsis Information Resource, Phoenix Bioinformatics, Newark, California, United States of America., Bennett JA; Department of Biology and Earth Science, Otterbein University, Westerville, Ohio, United States of America., Brady S; Department of Plant Biology and Genome Center, University of California Davis, Davis, California, United States of America., Britton R; Department of Microbiology and Molecular Genetics, Michigan State University, East Lansing, Michigan, United States of America., Carbon S; Division of Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, California, United States of America., Caruso SM; Department of Biological Sciences, University of Maryland Baltimore County, Baltimore, Maryland, United States of America., Clements D; Department of Biology, John Hopkins University, Baltimore, Maryland, United States of America., Dalia R; Department of Biology, Drexel University, Philadelphia, Pennsylvania, United States of America., Defelice M; Department of Biochemistry & Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania, United States of America., Doyle EL; Biology Department, Doane University, Crete, Nebraska, United States of America., Friedberg I; Department of Microbiology, Miami University, Oxford, Ohio, United States of America., Gurney SMR; Department of Biology, Drexel University, Philadelphia, Pennsylvania, United States of America., Hughes L; Department of Biological Sciences, University of North Texas, Denton, Texas, United States of America., Johnson A; Center for the Study of Biological Complexity, Virginia Commonwealth University, Richmond, Virginia, United States of America., Kowalski JM; Biological Sciences Department, University of Wisconsin-Parkside, Kenosha, Wisconsin, United States of America., Li D; The Arabidopsis Information Resource, Phoenix Bioinformatics, Newark, California, United States of America., Lovering RC; Institute of Cardiovascular Science, University College London, London, United Kingdom., Mans TL; Department of Biochemistry and Biotechnology, Minnesota State University Moorhead, Brooklyn Park, Minnesota, United States of America., McCarthy F; Department of Basic Science, College of Veterinary Medicine, Mississippi State University, Starkville, Mississippi, United States of America., Moore SD; Burnett School of Biomedical Sciences, University of Central Florida, Orlando, Florida, United States of America., Murphy R; Department of Biology, Centenary College of Louisiana, Shreveport, Louisiana, United States of America., Paustian TD; Department of Bacteriology, University of Wisconsin, Madison, Wisconsin, United States of America., Perdue S; Biological Sciences Department, University of Wisconsin-Parkside, Kenosha, Wisconsin, United States of America., Peterson CN; Biology Department, Suffolk University, Boston, Massachusetts, United States of America., Prüß BM; Microbiological Sciences Department, North Dakota State University, Fargo, North Dakota, United States of America., Saha MS; Department of Biology, College of William & Mary, Williamsburg, Virginia, United States of America., Sheehy RR; Biology Department, Radford University, Radford, Virginia, United States of America., Tansey JT; Department of Biochemistry and Molecular Biology, Otterbein University, Westerville, Ohio, United States of America., Temple L; School of Integrated Sciences, James Madison University, Harrisonburg, Virginia, United States of America., Thorman AW; Department of Environmental and Public Health Sciences, University of Cincinnati, Cincinnati, Ohio, United States of America., Trevino S; Department of Chemistry, Math, and Physics, Houston Baptist University, Houston, Texas, United States of America., Vollmer AC; Department of Biology, Swarthmore College, Swarthmore, Pennsylvania, United States of America., Walbot V; Department of Biology, Stanford University, Stanford, California, United States of America., Willey J; Department of Science Education, Donald and Barbara Zucker School of Medicine at Hofstra/Northwell, Hempstead, New York, United States of America., Siegele DA; Department of Biology, Texas A&M University, College Station, Texas, United States of America., Hu JC; Department of Biochemistry & Biophysics, Texas A&M University, College Station, Texas, United States of America.; Center for Phage Technology, Texas A&M University, College Station, Texas, United States of America.
Jazyk:	angličtina
Zdroj:	PLoS computational biology [PLoS Comput Biol] 2021 Oct 28; Vol. 17 (10), pp. e1009463. Date of Electronic Publication: 2021 Oct 28 (Print Publication: 2021).
DOI:	10.1371/journal.pcbi.1009463
Abstrakt:	Experimental data about gene functions curated from the primary literature have enormous value for research scientists in understanding biology. Using the Gene Ontology (GO), manual curation by experts has provided an important resource for studying gene function, especially within model organisms. Unprecedented expansion of the scientific literature and validation of the predicted proteins have increased both data value and the challenges of keeping pace. Capturing literature-based functional annotations is limited by the ability of biocurators to handle the massive and rapidly growing scientific literature. Within the community-oriented wiki framework for GO annotation called the Gene Ontology Normal Usage Tracking System (GONUTS), we describe an approach to expand biocuration through crowdsourcing with undergraduates. This multiplies the number of high-quality annotations in international databases, enriches our coverage of the literature on normal gene function, and pushes the field in new directions. From an intercollegiate competition judged by experienced biocurators, Community Assessment of Community Annotation with Ontologies (CACAO), we have contributed nearly 5,000 literature-based annotations. Many of those annotations are to organisms not currently well-represented within GO. Over a 10-year history, our community contributors have spurred changes to the ontology not traditionally covered by professional biocurators. The CACAO principle of relying on community members to participate in and shape the future of biocuration in GO is a powerful and scalable model used to promote the scientific enterprise. It also provides undergraduate students with a unique and enriching introduction to critical reading of primary literature and acquisition of marketable skills. Competing Interests: The authors have declared that no competing interests exist.
Databáze:	MEDLINE
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