{"id":"https://openalex.org/W2107038434","doi":"https://doi.org/10.1093/bib/bbr002","title":"The what, where, how and why of gene ontology--a primer for bioinformaticians","display_name":"The what, where, how and why of gene ontology--a primer for bioinformaticians","publication_year":2011,"publication_date":"2011-02-17","ids":{"openalex":"https://openalex.org/W2107038434","doi":"https://doi.org/10.1093/bib/bbr002","mag":"2107038434","pmid":"https://pubmed.ncbi.nlm.nih.gov/21330331"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbr002","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbr002","pdf_url":"https://academic.oup.com/bib/article-pdf/12/6/723/592473/bbr002.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/12/6/723/592473/bbr002.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5007000185","display_name":"Louis du Plessis","orcid":"https://orcid.org/0000-0003-0352-6289"},"institutions":[{"id":"https://openalex.org/I35440088","display_name":"ETH Zurich","ror":"https://ror.org/05a28rw58","country_code":"CH","type":"education","lineage":["https://openalex.org/I2799323385","https://openalex.org/I35440088"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"L. du Plessis","raw_affiliation_strings":["ETH Zurich, Computer Science, Universit\u00e4tstr. 6, 8092 Zurich, Switzerland"],"affiliations":[{"raw_affiliation_string":"ETH Zurich, Computer Science, Universit\u00e4tstr. 6, 8092 Zurich, Switzerland","institution_ids":["https://openalex.org/I35440088"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062768683","display_name":"Nives \u0160kunca","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"N. Skunca","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5050068380","display_name":"Christophe Dessimoz","orcid":"https://orcid.org/0000-0002-2170-853X"},"institutions":[{"id":"https://openalex.org/I192619145","display_name":"University of the Witwatersrand","ror":"https://ror.org/03rp50x72","country_code":"ZA","type":"education","lineage":["https://openalex.org/I192619145"]}],"countries":["ZA"],"is_corresponding":true,"raw_author_name":"C. Dessimoz","raw_affiliation_strings":["ETH Zurich, Computer Science, Universita \u00a8tstr. 6, 8092 Zurich, Switzerland","University of the Witwatersrand in South Africa"],"affiliations":[{"raw_affiliation_string":"ETH Zurich, Computer Science, Universita \u00a8tstr. 6, 8092 Zurich, Switzerland","institution_ids":[]},{"raw_affiliation_string":"University of the Witwatersrand in South Africa","institution_ids":["https://openalex.org/I192619145"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5050068380"],"corresponding_institution_ids":["https://openalex.org/I192619145"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":6.0028,"has_fulltext":true,"cited_by_count":164,"citation_normalized_percentile":{"value":0.97266189,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"12","issue":"6","first_page":"723","last_page":"735"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9991999864578247,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9965000152587891,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.7099838256835938},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.6642857789993286},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.6610028743743896},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.619706392288208},{"id":"https://openalex.org/keywords/resource","display_name":"Resource (disambiguation)","score":0.5512568950653076},{"id":"https://openalex.org/keywords/function","display_name":"Function (biology)","score":0.5416562557220459},{"id":"https://openalex.org/keywords/gene-annotation","display_name":"Gene Annotation","score":0.47097018361091614},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.47084543108940125},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4502975344657898},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.35219812393188477},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.22159075736999512},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19617238640785217},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.11356434226036072},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11151626706123352},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.08840933442115784}],"concepts":[{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.7099838256835938},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.6642857789993286},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6610028743743896},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.619706392288208},{"id":"https://openalex.org/C206345919","wikidata":"https://www.wikidata.org/wiki/Q20380951","display_name":"Resource (disambiguation)","level":2,"score":0.5512568950653076},{"id":"https://openalex.org/C14036430","wikidata":"https://www.wikidata.org/wiki/Q3736076","display_name":"Function (biology)","level":2,"score":0.5416562557220459},{"id":"https://openalex.org/C2908923196","wikidata":"https://www.wikidata.org/wiki/Q5205742","display_name":"Gene Annotation","level":4,"score":0.47097018361091614},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.47084543108940125},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4502975344657898},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.35219812393188477},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.22159075736999512},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19617238640785217},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.11356434226036072},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11151626706123352},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.08840933442115784},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/bib/bbr002","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbr002","pdf_url":"https://academic.oup.com/bib/article-pdf/12/6/723/592473/bbr002.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:21330331","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/21330331","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:eprints.ucl.ac.uk.OAI2:1395182","is_oa":false,"landing_page_url":"http://discovery.ucl.ac.uk/1395182/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400024","display_name":"UCL Discovery (University College London)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I45129253","host_organization_name":"University College London","host_organization_lineage":["https://openalex.org/I45129253"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"   BRIEFINGS IN BIOINFORMATICS , 12  (6)   pp. 723-735.   (2011)      ","raw_type":"Article"},{"id":"pmh:oai:europepmc.org:2221451","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3220872","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:www.research-collection.ethz.ch:20.500.11850/41897","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.11850/41897","pdf_url":null,"source":{"id":"https://openalex.org/S4306402302","display_name":"Repository for Publications and Research Data (ETH Zurich)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I35440088","host_organization_name":"ETH Zurich","host_organization_lineage":["https://openalex.org/I35440088"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Briefings in Bioinformatics, 12 (6)","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"doi:10.3929/ethz-b-000041897","is_oa":true,"landing_page_url":"https://doi.org/10.3929/ethz-b-000041897","pdf_url":null,"source":{"id":"https://openalex.org/S7407051236","display_name":"ETH Z\u00fcrich Research Collection","issn_l":null,"issn":[],"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.1093/bib/bbr002","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbr002","pdf_url":"https://academic.oup.com/bib/article-pdf/12/6/723/592473/bbr002.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.5,"display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321652","display_name":"Eidgen\u00f6ssische Technische Hochschule Z\u00fcrich","ror":"https://ror.org/05a28rw58"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2107038434.pdf","grobid_xml":"https://content.openalex.org/works/W2107038434.grobid-xml"},"referenced_works_count":54,"referenced_works":["https://openalex.org/W1236321187","https://openalex.org/W1517588910","https://openalex.org/W1527927437","https://openalex.org/W1647729745","https://openalex.org/W1969271108","https://openalex.org/W1971409507","https://openalex.org/W1984794455","https://openalex.org/W1990453950","https://openalex.org/W2006944023","https://openalex.org/W2007038646","https://openalex.org/W2008856488","https://openalex.org/W2011025549","https://openalex.org/W2025855398","https://openalex.org/W2026666393","https://openalex.org/W2034784092","https://openalex.org/W2034920595","https://openalex.org/W2035501939","https://openalex.org/W2036792999","https://openalex.org/W2045729458","https://openalex.org/W2048024098","https://openalex.org/W2053450932","https://openalex.org/W2057387739","https://openalex.org/W2060797027","https://openalex.org/W2062446742","https://openalex.org/W2080632044","https://openalex.org/W2083184875","https://openalex.org/W2084168100","https://openalex.org/W2087739686","https://openalex.org/W2096939566","https://openalex.org/W2103017472","https://openalex.org/W2105456144","https://openalex.org/W2113142309","https://openalex.org/W2116423958","https://openalex.org/W2117805756","https://openalex.org/W2120155048","https://openalex.org/W2121343862","https://openalex.org/W2123765724","https://openalex.org/W2123854512","https://openalex.org/W2126225210","https://openalex.org/W2127480960","https://openalex.org/W2127563440","https://openalex.org/W2127648442","https://openalex.org/W2127924375","https://openalex.org/W2132160618","https://openalex.org/W2132819807","https://openalex.org/W2141545183","https://openalex.org/W2141885858","https://openalex.org/W2158057897","https://openalex.org/W2159348493","https://openalex.org/W2167318540","https://openalex.org/W2170241526","https://openalex.org/W2276605232","https://openalex.org/W4210400672","https://openalex.org/W4234895322"],"related_works":["https://openalex.org/W2901823680","https://openalex.org/W2059565715","https://openalex.org/W1999129612","https://openalex.org/W2116418175","https://openalex.org/W2009940763","https://openalex.org/W2126804125","https://openalex.org/W2946410450","https://openalex.org/W4361192415","https://openalex.org/W2137318037","https://openalex.org/W4386637333"],"abstract_inverted_index":{"With":[0],"high-throughput":[1],"technologies":[2],"providing":[3],"vast":[4],"amounts":[5],"of":[6,61,64,71,76,83,94],"data,":[7],"it":[8],"has":[9],"become":[10],"more":[11],"important":[12,59,88],"to":[13,52,91],"provide":[14,48],"systematic,":[15],"quality":[16],"annotations.":[17],"The":[18],"Gene":[19],"Ontology":[20],"(GO)":[21],"project":[22],"is":[23,34,39],"the":[24,53,62,65,92],"largest":[25],"resource":[26],"for":[27,55],"cataloguing":[28],"gene":[29],"function.":[30],"Nonetheless,":[31],"its":[32],"use":[33,93],"not":[35],"yet":[36],"ubiquitous":[37],"and":[38,69,85],"still":[40],"fraught":[41],"with":[42],"pitfalls.":[43],"In":[44],"this":[45],"review,":[46],"we":[47],"a":[49],"short":[50],"primer":[51],"GO":[54,77,84,95],"bioinformaticians.":[56],"We":[57],"summarize":[58],"aspects":[60],"structure":[63],"ontology,":[66],"describe":[67],"sources":[68],"types":[70],"functional":[72],"annotations,":[73],"survey":[74],"measures":[75],"annotation":[78],"similarity,":[79],"review":[80],"typical":[81],"uses":[82],"discuss":[86],"other":[87],"considerations":[89],"pertaining":[90],"in":[96],"bioinformatics":[97],"applications.":[98]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":15},{"year":2024,"cited_by_count":16},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":9},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":10},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":11},{"year":2016,"cited_by_count":10},{"year":2015,"cited_by_count":19},{"year":2014,"cited_by_count":17},{"year":2013,"cited_by_count":12},{"year":2012,"cited_by_count":12}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
