{"id":"https://openalex.org/W2131776976","doi":"https://doi.org/10.1093/bioinformatics/bts727","title":"Assessing identity, redundancy and confounds in Gene Ontology annotations over time","display_name":"Assessing identity, redundancy and confounds in Gene Ontology annotations over time","publication_year":2013,"publication_date":"2013-01-06","ids":{"openalex":"https://openalex.org/W2131776976","doi":"https://doi.org/10.1093/bioinformatics/bts727","mag":"2131776976","pmid":"https://pubmed.ncbi.nlm.nih.gov/23297035"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bts727","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts727","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/4/476/48898236/bioinformatics_29_4_476.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/29/4/476/48898236/bioinformatics_29_4_476.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021003479","display_name":"Jesse Gillis","orcid":"https://orcid.org/0000-0002-0936-9774"},"institutions":[{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]},{"id":"https://openalex.org/I4210151837","display_name":"High Throughput Biology (United States)","ror":"https://ror.org/05h1bjp83","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151837"]},{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]}],"countries":["CA","US"],"is_corresponding":true,"raw_author_name":"Jesse Gillis","raw_affiliation_strings":["1 Stanley Institute for Cognitive Genomics, Cold Spring Harbor Laboratory, 192B Genome Research Center, 500 Sunnyside Boulevard, Woodbury, NY 11797, USA and 2Centre for High-Throughput Biology and Department of Psychiatry, University of British Columbia, 177 Michael Smith Laboratories, 2185 East Mall, Vancouver, British Columbia V6T1Z4, Canada"],"affiliations":[{"raw_affiliation_string":"1 Stanley Institute for Cognitive Genomics, Cold Spring Harbor Laboratory, 192B Genome Research Center, 500 Sunnyside Boulevard, Woodbury, NY 11797, USA and 2Centre for High-Throughput Biology and Department of Psychiatry, University of British Columbia, 177 Michael Smith Laboratories, 2185 East Mall, Vancouver, British Columbia V6T1Z4, Canada","institution_ids":["https://openalex.org/I141945490","https://openalex.org/I4210151837","https://openalex.org/I2750212522"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012991069","display_name":"Paul Pavlidis","orcid":"https://orcid.org/0000-0002-0426-5028"},"institutions":[{"id":"https://openalex.org/I4210151837","display_name":"High Throughput Biology (United States)","ror":"https://ror.org/05h1bjp83","country_code":"US","type":"company","lineage":["https://openalex.org/I4210151837"]},{"id":"https://openalex.org/I141945490","display_name":"University of British Columbia","ror":"https://ror.org/03rmrcq20","country_code":"CA","type":"education","lineage":["https://openalex.org/I141945490"]},{"id":"https://openalex.org/I2750212522","display_name":"Cold Spring Harbor Laboratory","ror":"https://ror.org/02qz8b764","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2750212522"]}],"countries":["CA","US"],"is_corresponding":false,"raw_author_name":"Paul Pavlidis","raw_affiliation_strings":["1 Stanley Institute for Cognitive Genomics, Cold Spring Harbor Laboratory, 192B Genome Research Center, 500 Sunnyside Boulevard, Woodbury, NY 11797, USA and 2Centre for High-Throughput Biology and Department of Psychiatry, University of British Columbia, 177 Michael Smith Laboratories, 2185 East Mall, Vancouver, British Columbia V6T1Z4, Canada"],"affiliations":[{"raw_affiliation_string":"1 Stanley Institute for Cognitive Genomics, Cold Spring Harbor Laboratory, 192B Genome Research Center, 500 Sunnyside Boulevard, Woodbury, NY 11797, USA and 2Centre for High-Throughput Biology and Department of Psychiatry, University of British Columbia, 177 Michael Smith Laboratories, 2185 East Mall, Vancouver, British Columbia V6T1Z4, Canada","institution_ids":["https://openalex.org/I141945490","https://openalex.org/I4210151837","https://openalex.org/I2750212522"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5021003479"],"corresponding_institution_ids":["https://openalex.org/I141945490","https://openalex.org/I2750212522","https://openalex.org/I4210151837"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.7436,"has_fulltext":true,"cited_by_count":65,"citation_normalized_percentile":{"value":0.9400161,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"29","issue":"4","first_page":"476","last_page":"482"},"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":0.9983999729156494,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9865999817848206,"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/redundancy","display_name":"Redundancy (engineering)","score":0.7387579679489136},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6885518431663513},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.6870101690292358},{"id":"https://openalex.org/keywords/identity","display_name":"Identity (music)","score":0.6312669515609741},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.5367914438247681},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.44746217131614685},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.4112909734249115},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.40063416957855225},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.28970086574554443},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23951485753059387},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.22746697068214417}],"concepts":[{"id":"https://openalex.org/C152124472","wikidata":"https://www.wikidata.org/wiki/Q1204361","display_name":"Redundancy (engineering)","level":2,"score":0.7387579679489136},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6885518431663513},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.6870101690292358},{"id":"https://openalex.org/C2778355321","wikidata":"https://www.wikidata.org/wiki/Q17079427","display_name":"Identity (music)","level":2,"score":0.6312669515609741},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.5367914438247681},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.44746217131614685},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.4112909734249115},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.40063416957855225},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.28970086574554443},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23951485753059387},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.22746697068214417},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005796","descriptor_name":"Genes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","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":true},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D018875","descriptor_name":"Vocabulary, Controlled","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","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":4,"locations":[{"id":"doi:10.1093/bioinformatics/bts727","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts727","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/4/476/48898236/bioinformatics_29_4_476.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23297035","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23297035","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:repository.cshl.edu:28038","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306402288","display_name":"Cold Spring Harbor Laboratory Institutional Repository (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"acceptedVersion","is_accepted":true,"is_published":false,"raw_source_name":"","raw_type":"Paper"},{"id":"pmh:oai:europepmc.org:2907605","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3570208","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"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bts727","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bts727","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/4/476/48898236/bioinformatics_29_4_476.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3969565085","display_name":null,"funder_award_id":"Foundation","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"},{"id":"https://openalex.org/G4389354971","display_name":null,"funder_award_id":"Research","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"},{"id":"https://openalex.org/G4498798387","display_name":null,"funder_award_id":"Canadian Institutes for Health Research","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"},{"id":"https://openalex.org/G4515207065","display_name":null,"funder_award_id":"Grant","funder_id":"https://openalex.org/F4320334506","funder_display_name":"Canadian Institutes of Health Research"},{"id":"https://openalex.org/G6082334676","display_name":null,"funder_award_id":"GM076990","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320319965","display_name":"Michael Smith Health Research BC","ror":"https://ror.org/020x39229"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320334506","display_name":"Canadian Institutes of Health Research","ror":"https://ror.org/01gavpb45"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2131776976.pdf","grobid_xml":"https://content.openalex.org/works/W2131776976.grobid-xml"},"referenced_works_count":36,"referenced_works":["https://openalex.org/W1700503930","https://openalex.org/W1929792927","https://openalex.org/W1964444099","https://openalex.org/W1973626596","https://openalex.org/W1979430548","https://openalex.org/W1985213868","https://openalex.org/W2011340259","https://openalex.org/W2032838501","https://openalex.org/W2057119643","https://openalex.org/W2060797027","https://openalex.org/W2064957473","https://openalex.org/W2079665010","https://openalex.org/W2081038787","https://openalex.org/W2094129019","https://openalex.org/W2096586490","https://openalex.org/W2101595316","https://openalex.org/W2103017472","https://openalex.org/W2105187843","https://openalex.org/W2108498827","https://openalex.org/W2109325208","https://openalex.org/W2110065044","https://openalex.org/W2125383951","https://openalex.org/W2130410032","https://openalex.org/W2136890152","https://openalex.org/W2142796008","https://openalex.org/W2144907278","https://openalex.org/W2145189015","https://openalex.org/W2146545950","https://openalex.org/W2147461734","https://openalex.org/W2150392051","https://openalex.org/W2157261429","https://openalex.org/W2158261276","https://openalex.org/W2159348493","https://openalex.org/W4237346115","https://openalex.org/W6670200328","https://openalex.org/W6676383650"],"related_works":["https://openalex.org/W2361861616","https://openalex.org/W2263699433","https://openalex.org/W2377979023","https://openalex.org/W2218034408","https://openalex.org/W2392921965","https://openalex.org/W2358755282","https://openalex.org/W2625833328","https://openalex.org/W1533177136","https://openalex.org/W4380994516","https://openalex.org/W2794019507"],"abstract_inverted_index":{"Data":[0],"available":[1],"at":[2],"http://chibi.ubc.ca/assessGO.":[3]},"counts_by_year":[{"year":2025,"cited_by_count":5},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":8},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":8},{"year":2014,"cited_by_count":7},{"year":2013,"cited_by_count":5}],"updated_date":"2026-04-18T07:56:08.524223","created_date":"2025-10-10T00:00:00"}
