Plos Computational Biology
| Autor: | Tamara L. Mans, Seth Carbon, Susan M. R. Gurney, Meredith Defelice, Larissa K. Temple, Ritu R. Dalia, Robert A. Britton, Birgit M. Prüß, Joanne M. Willey, Suzanne A. Aleksander, Jason J. Gill, Lee E. Hughes, Ruth C. Lovering, Virginia Walbot, Erin L. Doyle, Donghui Li, Shabnam Farrar, Sean D. Moore, Jolene Ramsey, Iddo Friedberg, Deborah A. Siegele, Tanya Z. Berardini, B. K. McIntosh, Alexander William Thorman, Nathan M. Liles, Margaret S. Saha, Ivan Erill, Allison Johnson, John T. Tansey, Celeste Peterson, Rebecca L. Murphy, Jason M. Kowalski, Daniel P. Renfro, Timothy D. Paustian, James C. Hu, Sarah E. Ades, Sandra A. LaBonte, Adrienne E. Zweifel, Curtis Ross, Fiona M. McCarthy, Steven M. Caruso, Sarah Perdue, Dave Clements, Amy Cheng Vollmer, Robert R. Sheehy, Jennifer A. Bennett, Siobhan M. Brady, Saul R. Trevino |
|---|---|
| Přispěvatelé: | University of St Andrews. School of Biology, Ouellette, Francis |
| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
Science and Technology Workforce
LB2300 Higher Education Gene Identification and Analysis Social Sciences Scientific literature Ontology (information science) Careers in Research Mathematical Sciences Resource (project management) Sociology Consortia Databases Genetic Biology (General) Function (engineering) Data Management media_common Scientific enterprise Ecology Gene Ontologies Genomics Biological Sciences 1.5 Resources and infrastructure (underpinning) Professions Networking and Information Technology R&D Experimental Organism Systems Computational Theory and Mathematics Modeling and Simulation Educational Status Crowdsourcing QA75 LB2300 Computer and Information Sciences Science Policy Bioinformatics QH301-705.5 QA75 Electronic computers. Computer science media_common.quotation_subject QH426 Genetics DOAE Research and Analysis Methods Education Databases Cellular and Molecular Neuroscience Annotation Model Organisms Genetic Underpinning research Information and Computing Sciences Ontologies Genetics Humans QH426 Molecular Biology Ecology Evolution Behavior and Systematics Pace MCC business.industry Biology and Life Sciences Computational Biology Proteins DAS Molecular Sequence Annotation Genome Analysis Genome Annotation Data science Gene Ontology Critical reading People and Places Animal Studies Scientists Population Groupings business Undergraduates |
| Zdroj: | PLoS Computational Biology, Vol 17, Iss 10 (2021) PLoS Computational Biology, Vol 17, Iss 10, p e1009463 (2021) PLoS computational biology, vol 17, iss 10 PLoS Computational Biology |
| Popis: | 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. Author summary The primary scientific literature catalogs the results from publicly funded scientific research about gene function in human-readable format. Information captured from those studies in a widely adopted, machine-readable standard format comes in the form of Gene Ontology (GO) annotations about gene functions from all domains of life. Manual annotations based on inferences directly from the scientific literature, including the evidence used to make such inferences, represent the best return on investment by improving data accessibility across the biological sciences and allowing novel insights between evolutionarily related organisms. To supplement professional curation, our Community Assessment of Community Annotation with Ontologies (CACAO) project enabled annotation of the scientific literature by community annotators, in this case undergraduates, which resulted in the contribution of thousands of unique, validated entries to public resources. Importantly, the annotations described here initiated by nonexperts often deal with topics not typically covered by the experts. These annotations are now being used by scientists worldwide in their research efforts. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|