{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,30]],"date-time":"2025-07-30T11:48:41Z","timestamp":1753876121128,"version":"3.41.2"},"reference-count":18,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2020,1,21]],"date-time":"2020-01-21T00:00:00Z","timestamp":1579564800000},"content-version":"vor","delay-in-days":20,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000265","name":"Medical Research Council","doi-asserted-by":"publisher","award":["G1000968","MR\/N030117\/1"],"award-info":[{"award-number":["G1000968","MR\/N030117\/1"]}],"id":[{"id":"10.13039\/501100000265","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000051","name":"National Human Genome Research Institute","doi-asserted-by":"publisher","award":["U41 HG00739"],"award-info":[{"award-number":["U41 HG00739"]}],"id":[{"id":"10.13039\/100000051","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Brief summaries describing the function of each gene\u2019s product(s) are of great value to the research community, especially when interpreting genome-wide studies that reveal changes to hundreds of genes. However, manually writing such summaries, even for a single species, is a daunting task; for example, the Drosophila melanogaster genome contains almost 14\u2009000 protein-coding genes. One solution is to use computational methods to generate summaries, but this often fails to capture the key functions or express them eloquently. Here, we describe how we solicited help from the research community to generate manually written summaries of D. melanogaster gene function. Based on the data within the FlyBase database, we developed a computational pipeline to identify researchers who have worked extensively on each gene. We e-mailed these researchers to ask them to draft a brief summary of the main function(s) of the gene\u2019s product, which we edited for consistency to produce a \u2018gene snapshot\u2019. This approach yielded 1800 gene snapshot submissions within a 3-month period. We discuss the general utility of this strategy for other databases that capture data from the research literature.<\/jats:p>\n               <jats:p>Database URL: https:\/\/flybase.org\/<\/jats:p>","DOI":"10.1093\/database\/baz152","type":"journal-article","created":{"date-parts":[[2019,12,17]],"date-time":"2019-12-17T12:10:34Z","timestamp":1576584634000},"source":"Crossref","is-referenced-by-count":5,"title":["Building a pipeline to solicit expert knowledge from the community to aid gene summary curation"],"prefix":"10.1093","volume":"2020","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-0086-5621","authenticated-orcid":false,"given":"Giulia","family":"Antonazzo","sequence":"first","affiliation":[{"name":"Department of Physiology, Development and Neuroscience, University of Cambridge, Downing Street, Cambridge, CB2 3DY, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6644-8129","authenticated-orcid":false,"given":"Jose M","family":"Urbano","sequence":"additional","affiliation":[{"name":"Department of Physiology, Development and Neuroscience, University of Cambridge, Downing Street, Cambridge, CB2 3DY, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2759-266X","authenticated-orcid":false,"given":"Steven J","family":"Marygold","sequence":"additional","affiliation":[{"name":"Department of Physiology, Development and Neuroscience, University of Cambridge, Downing Street, Cambridge, CB2 3DY, UK"}]},{"given":"Gillian H","family":"Millburn","sequence":"additional","affiliation":[{"name":"Department of Physiology, Development and Neuroscience, University of Cambridge, Downing Street, Cambridge, CB2 3DY, UK"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8958-7017","authenticated-orcid":false,"given":"Nicholas H","family":"Brown","sequence":"additional","affiliation":[{"name":"Department of Physiology, Development and Neuroscience, University of Cambridge, Downing Street, Cambridge, CB2 3DY, UK"}]}],"member":"286","published-online":{"date-parts":[[2020,1,21]]},"reference":[{"key":"2020012101063527800_ref1","doi-asserted-by":"crossref","first-page":"D736","DOI":"10.1093\/nar\/gkx1112","article-title":"Saccharomyces genome database informs human biology","volume":"46","author":"Skrzypek","year":"2018","journal-title":"Nucleic Acids Res"},{"key":"2020012101063527800_ref2","doi-asserted-by":"crossref","first-page":"D506","DOI":"10.1093\/nar\/gky1049","article-title":"UniProt: a worldwide hub of protein knowledge","volume":"47","author":"UniProt Consortium","year":"2019","journal-title":"Nucleic Acids Res"},{"key":"2020012101063527800_ref3","doi-asserted-by":"crossref","first-page":"D869","DOI":"10.1093\/nar\/gkx998","article-title":"WormBase 2017: molting into a new stage","volume":"46","author":"Lee","year":"2018","journal-title":"Nucleic Acids Res"},{"key":"2020012101063527800_ref4","doi-asserted-by":"crossref","first-page":"1449","DOI":"10.1016\/j.ipm.2007.03.009","article-title":"Automatic summarising: The state of the art","volume":"43","author":"Sp\u00e4rck Jones","year":"2007","journal-title":"Information Processing & Management"},{"key":"2020012101063527800_ref5","first-page":"97","volume-title":"Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing","author":"Jin","year":"2009"},{"key":"2020012101063527800_ref6","doi-asserted-by":"crossref","first-page":"1777","DOI":"10.1016\/j.ipm.2007.01.018","article-title":"Generating gene summaries from biomedical literature: a study of semi-structured summarization","volume":"43","author":"Ling","year":"2007","journal-title":"Information Processing & Management"},{"key":"2020012101063527800_ref7","doi-asserted-by":"crossref","first-page":"D759","DOI":"10.1093\/nar\/gky1003","article-title":"FlyBase 2.0: the next generation","volume":"47","author":"Thurmond","year":"2019","journal-title":"Nucleic Acids Res"},{"key":"2020012101063527800_ref8","doi-asserted-by":"crossref","first-page":"277","DOI":"10.1038\/s41684-018-0150-4","article-title":"Model organism data evolving in support of translational medicine","volume":"47","author":"Howe","year":"2018","journal-title":"Lab Anim (NY)"},{"key":"2020012101063527800_ref9","first-page":"D330","article-title":"The Gene Ontology resource: 20 years and still GOing strong","volume-title":"Nucleic Acids Res","year":"2019"},{"key":"2020012101063527800_ref10","first-page":"25","article-title":"Gene ontology: tool for the unification of biology","volume":"25","author":"Ashburner","year":"2000","journal-title":"The Gene Ontology Consortium. 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McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University (Baltimore, MD)","key":"2020012101063527800_ref14"},{"issue":"D1","key":"2020012101063527800_ref15","doi-asserted-by":"crossref","first-page":"D744","DOI":"10.1093\/nar\/gkw1119","article-title":"OrthoDB v9.1: cataloging evolutionary and functional annotations for animal, fungal, plant, archaeal, bacterial and viral orthologs","volume":"45","author":"Zdobnov","year":"2017","journal-title":"Nucleic Acids Res."},{"key":"2020012101063527800_ref16","doi-asserted-by":"crossref","first-page":"D786","DOI":"10.1093\/nar\/gkv1046","article-title":"FlyBase: establishing a Gene Group resource for Drosophila melanogaster","volume":"44","author":"Attrill","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"2020012101063527800_ref17","doi-asserted-by":"crossref","first-page":"i337","DOI":"10.1093\/bioinformatics\/btm189","article-title":"A Chado case study: an ontology-based modular schema for representing genome-associated biological information","volume":"23","author":"Mungall","year":"2007","journal-title":"Bioinformatics"},{"key":"2020012101063527800_ref18","doi-asserted-by":"publisher","DOI":"10.1101\/633255","article-title":"Revisiting the decay of scientific email addresses","author":"Rodriguez-Esteban","year":"2019","journal-title":"bioRxiv"}],"container-title":["Database"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/baz152\/31889100\/baz152.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/baz152\/31889100\/baz152.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,1,21]],"date-time":"2020-01-21T06:07:33Z","timestamp":1579586853000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/database\/article\/doi\/10.1093\/database\/baz152\/5709803"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2020,1,1]]},"references-count":18,"URL":"https:\/\/doi.org\/10.1093\/database\/baz152","relation":{},"ISSN":["1758-0463"],"issn-type":[{"type":"electronic","value":"1758-0463"}],"subject":[],"published-other":{"date-parts":[[2020]]},"published":{"date-parts":[[2020,1,1]]},"article-number":"baz152"}}