{"id":"https://openalex.org/W2123268237","doi":"https://doi.org/10.1093/database/bau089","title":"A semi-automated methodology for finding lipid-related GO terms","display_name":"A semi-automated methodology for finding lipid-related GO terms","publication_year":2014,"publication_date":"2014-01-01","ids":{"openalex":"https://openalex.org/W2123268237","doi":"https://doi.org/10.1093/database/bau089","mag":"2123268237","pmid":"https://pubmed.ncbi.nlm.nih.gov/25209026"},"language":"en","primary_location":{"id":"doi:10.1093/database/bau089","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bau089","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bau089/17473271/bau089.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bau089/17473271/bau089.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5003315480","display_name":"Mengyuan Fan","orcid":null},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Mengyuan Fan","raw_affiliation_strings":["Department of Computer Science, National University of Singapore, Singapore 117417, 2NUS Graduate School of Integrative Science and Engineering, National University of Singapore, Singapore 117456, 3National Research Foundation, Singapore 138602, 4Department of Biochemistry, National University of Singapore, Singapore 117599 and 5Department of Pathology, National University of Singapore, Singapore 119074"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, National University of Singapore, Singapore 117417, 2NUS Graduate School of Integrative Science and Engineering, National University of Singapore, Singapore 117456, 3National Research Foundation, Singapore 138602, 4Department of Biochemistry, National University of Singapore, Singapore 117599 and 5Department of Pathology, National University of Singapore, Singapore 119074","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058861955","display_name":"Hong Sang Low","orcid":null},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Hong Sang Low","raw_affiliation_strings":["Department of Computer Science, National University of Singapore, Singapore 117417, 2NUS Graduate School of Integrative Science and Engineering, National University of Singapore, Singapore 117456, 3National Research Foundation, Singapore 138602, 4Department of Biochemistry, National University of Singapore, Singapore 117599 and 5Department of Pathology, National University of Singapore, Singapore 119074"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, National University of Singapore, Singapore 117417, 2NUS Graduate School of Integrative Science and Engineering, National University of Singapore, Singapore 117456, 3National Research Foundation, Singapore 138602, 4Department of Biochemistry, National University of Singapore, Singapore 117599 and 5Department of Pathology, National University of Singapore, Singapore 119074","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076808018","display_name":"Markus R. Wenk","orcid":"https://orcid.org/0000-0001-5447-7881"},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["SG"],"is_corresponding":false,"raw_author_name":"Markus R. Wenk","raw_affiliation_strings":["Department of Computer Science, National University of Singapore, Singapore 117417, 2NUS Graduate School of Integrative Science and Engineering, National University of Singapore, Singapore 117456, 3National Research Foundation, Singapore 138602, 4Department of Biochemistry, National University of Singapore, Singapore 117599 and 5Department of Pathology, National University of Singapore, Singapore 119074"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, National University of Singapore, Singapore 117417, 2NUS Graduate School of Integrative Science and Engineering, National University of Singapore, Singapore 117456, 3National Research Foundation, Singapore 138602, 4Department of Biochemistry, National University of Singapore, Singapore 117599 and 5Department of Pathology, National University of Singapore, Singapore 119074","institution_ids":["https://openalex.org/I165932596"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5012381970","display_name":"Limsoon Wong","orcid":"https://orcid.org/0000-0003-1241-5441"},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["SG"],"is_corresponding":true,"raw_author_name":"Limsoon Wong","raw_affiliation_strings":["Department of Computer Science, National University of Singapore, Singapore 117417, 2NUS Graduate School of Integrative Science and Engineering, National University of Singapore, Singapore 117456, 3National Research Foundation, Singapore 138602, 4Department of Biochemistry, National University of Singapore, Singapore 117599 and 5Department of Pathology, National University of Singapore, Singapore 119074"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, National University of Singapore, Singapore 117417, 2NUS Graduate School of Integrative Science and Engineering, National University of Singapore, Singapore 117456, 3National Research Foundation, Singapore 138602, 4Department of Biochemistry, National University of Singapore, Singapore 117599 and 5Department of Pathology, National University of Singapore, Singapore 119074","institution_ids":["https://openalex.org/I165932596"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5012381970"],"corresponding_institution_ids":["https://openalex.org/I165932596"],"apc_list":{"value":2729,"currency":"USD","value_usd":2729},"apc_paid":{"value":2729,"currency":"USD","value_usd":2729},"fwci":0.0,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.09872321,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"2014","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.6144000291824341,"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":0.6144000291824341,"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":0.36800000071525574,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.0032999999821186066,"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/computer-science","display_name":"Computer science","score":0.6444724798202515},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.6233448386192322},{"id":"https://openalex.org/keywords/class","display_name":"Class (philosophy)","score":0.5242726802825928},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.48587435483932495},{"id":"https://openalex.org/keywords/data-curation","display_name":"Data curation","score":0.43376922607421875},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.37762361764907837},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3012116849422455},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.27236783504486084},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24596303701400757}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6444724798202515},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.6233448386192322},{"id":"https://openalex.org/C2777212361","wikidata":"https://www.wikidata.org/wiki/Q5127848","display_name":"Class (philosophy)","level":2,"score":0.5242726802825928},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.48587435483932495},{"id":"https://openalex.org/C91632574","wikidata":"https://www.wikidata.org/wiki/Q15088675","display_name":"Data curation","level":2,"score":0.43376922607421875},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.37762361764907837},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3012116849422455},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.27236783504486084},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24596303701400757},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","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}],"mesh":[{"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":"D008055","descriptor_name":"Lipids","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D008055","descriptor_name":"Lipids","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D008055","descriptor_name":"Lipids","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":true},{"descriptor_ui":"D008055","descriptor_name":"Lipids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D008055","descriptor_name":"Lipids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D008055","descriptor_name":"Lipids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","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":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D063990","descriptor_name":"Gene Ontology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/bau089","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bau089","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bau089/17473271/bau089.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:25209026","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25209026","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":"Database : the journal of biological databases and curation","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4160098","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4160098","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/bau089","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/bau089","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/bau089/17473271/bau089.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1779897266","display_name":null,"funder_award_id":"2007\u201004","funder_id":"https://openalex.org/F4320320709","funder_display_name":"National Research Foundation Singapore"}],"funders":[{"id":"https://openalex.org/F4320320671","display_name":"National Research Foundation","ror":"https://ror.org/05s0g1g46"},{"id":"https://openalex.org/F4320320709","display_name":"National Research Foundation Singapore","ror":"https://ror.org/03cpyc314"},{"id":"https://openalex.org/F4320322724","display_name":"Ministry of Education, India","ror":"https://ror.org/048xjjh50"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2123268237.pdf","grobid_xml":"https://content.openalex.org/works/W2123268237.grobid-xml"},"referenced_works_count":20,"referenced_works":["https://openalex.org/W1236321187","https://openalex.org/W1647729745","https://openalex.org/W1659833910","https://openalex.org/W1965091013","https://openalex.org/W1975783279","https://openalex.org/W2007038646","https://openalex.org/W2023885834","https://openalex.org/W2084168100","https://openalex.org/W2100935296","https://openalex.org/W2103017472","https://openalex.org/W2116687544","https://openalex.org/W2121343862","https://openalex.org/W2127563440","https://openalex.org/W2128049108","https://openalex.org/W2142643924","https://openalex.org/W2157290971","https://openalex.org/W2170659294","https://openalex.org/W2999820612","https://openalex.org/W6636975626","https://openalex.org/W6675339850"],"related_works":["https://openalex.org/W2701062589","https://openalex.org/W4308914582","https://openalex.org/W4388126069","https://openalex.org/W2567393658","https://openalex.org/W2003333417","https://openalex.org/W3200944274","https://openalex.org/W2378862226","https://openalex.org/W118236634","https://openalex.org/W2400390830","https://openalex.org/W2355326633"],"abstract_inverted_index":{"MOTIVATION:":[0],"Although":[1],"semantic":[2],"similarity":[3],"in":[4,70,80],"Gene":[5],"Ontology":[6],"(GO)":[7],"and":[8,53,65,102,173],"other":[9],"approaches":[10],"may":[11],"be":[12,140],"used":[13],"to":[14,24,49,56,62,139,153,165],"find":[15,26],"similar":[16,115],"GO":[17,30,59,78,97,112,161],"terms,":[18,60],"there":[19],"is":[20,162,176,183],"yet":[21],"a":[22,27,33,47,81,92,119,146,189],"method":[23,122],"systematically":[25],"class":[28,156],"of":[29,68,94,127,160,195],"terms":[31,79,98,113,129,135,197],"sharing":[32],"common":[34],"property":[35],"with":[36,198],"high":[37,190,200],"accuracy":[38],"(e.g.,":[39],"involving":[40],"human":[41,147],"curation).":[42],"RESULTS:":[43],"We":[44,89],"have":[45],"developed":[46],"methodology":[48,75],"address":[50],"this":[51],"issue":[52],"applied":[54],"it":[55],"identify":[57],"lipid-related":[58,77,95,128,181,196],"owing":[61],"the":[63,108,125,131,155,168],"important":[64],"varied":[66],"roles":[67],"lipids":[69],"many":[71],"biological":[72],"processes.":[73],"Our":[74,185],"finds":[76],"semi-automated":[82],"manner,":[83],"requiring":[84],"only":[85],"moderate":[86],"manual":[87,103],"curation.":[88,104],"first":[90],"obtain":[91],"list":[93,126],"gold-standard":[96],"by":[99,145],"keyword":[100],"search":[101],"Then,":[105],"based":[106],"on":[107],"hypothesis":[109],"that":[110,123],"co-annotated":[111],"share":[114],"properties,":[116],"we":[117],"develop":[118],"machine":[120],"learning":[121],"expands":[124],"from":[130],"gold":[132],"standard.":[133],"Those":[134],"predicted":[136],"most":[137],"likely":[138],"lipid":[141],"related":[142],"are":[143],"examined":[144],"curator":[148],"following":[149],"specific":[150],"curation":[151,169,174],"rules":[152],"confirm":[154],"labels.":[157],"The":[158,171],"structure":[159],"also":[163],"exploited":[164],"help":[166],"reduce":[167],"effort.":[170],"prediction":[172],"cycle":[175],"repeated":[177],"until":[178],"no":[179],"further":[180],"term":[182],"found.":[184],"approach":[186],"has":[187],"covered":[188],"proportion,":[191],"if":[192],"not":[193],"all,":[194],"relatively":[199],"efficiency.":[201],"DATABASE":[202],"URL:":[203],"http://compbio.ddns.comp.nus.edu.sg/\u223clipidgo.":[204]},"counts_by_year":[{"year":2023,"cited_by_count":1}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
