{"id":"https://openalex.org/W2117405098","doi":"https://doi.org/10.1093/nar/gkt1192","title":"NeXO Web: the NeXO ontology database and visualization platform","display_name":"NeXO Web: the NeXO ontology database and visualization platform","publication_year":2013,"publication_date":"2013-11-23","ids":{"openalex":"https://openalex.org/W2117405098","doi":"https://doi.org/10.1093/nar/gkt1192","mag":"2117405098","pmid":"https://pubmed.ncbi.nlm.nih.gov/24271398"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkt1192","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt1192","pdf_url":"https://academic.oup.com/nar/article-pdf/42/D1/D1269/3624945/gkt1192.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","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/nar/article-pdf/42/D1/D1269/3624945/gkt1192.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001574159","display_name":"Janusz Dutkowski","orcid":null},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Janusz Dutkowski","raw_affiliation_strings":["Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057223513","display_name":"Keiichiro Ono","orcid":"https://orcid.org/0000-0003-4042-3748"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Keiichiro Ono","raw_affiliation_strings":["Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036803974","display_name":"Michael H. Kramer","orcid":"https://orcid.org/0000-0003-2544-7266"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Kramer","raw_affiliation_strings":["Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022834461","display_name":"Michael Yu","orcid":"https://orcid.org/0000-0002-9560-2017"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Yu","raw_affiliation_strings":["Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038117263","display_name":"Dexter Pratt","orcid":"https://orcid.org/0000-0002-1471-9513"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Dexter Pratt","raw_affiliation_strings":["Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035266214","display_name":"Barry Demchak","orcid":"https://orcid.org/0000-0001-7065-7786"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Barry Demchak","raw_affiliation_strings":["Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089373684","display_name":"Trey Ideker","orcid":"https://orcid.org/0000-0002-1708-8454"},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California, San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Trey Ideker","raw_affiliation_strings":["Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA"],"affiliations":[{"raw_affiliation_string":"Department of Medicine, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093, USA","institution_ids":["https://openalex.org/I36258959"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5001574159"],"corresponding_institution_ids":["https://openalex.org/I36258959"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":1.7968,"has_fulltext":false,"cited_by_count":15,"citation_normalized_percentile":{"value":0.85037776,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"42","issue":"D1","first_page":"D1269","last_page":"D1274"},"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":0.9994000196456909,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9835000038146973,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.7090848684310913},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.687207818031311},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6658955812454224},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.6408759951591492},{"id":"https://openalex.org/keywords/hierarchy","display_name":"Hierarchy","score":0.4581626057624817},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.42581576108932495},{"id":"https://openalex.org/keywords/construct","display_name":"Construct (python library)","score":0.42275270819664},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.37783387303352356},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3491275906562805},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26505762338638306},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.25606679916381836},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1250191628932953}],"concepts":[{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.7090848684310913},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.687207818031311},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6658955812454224},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.6408759951591492},{"id":"https://openalex.org/C31170391","wikidata":"https://www.wikidata.org/wiki/Q188619","display_name":"Hierarchy","level":2,"score":0.4581626057624817},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.42581576108932495},{"id":"https://openalex.org/C2780801425","wikidata":"https://www.wikidata.org/wiki/Q5164392","display_name":"Construct (python library)","level":2,"score":0.42275270819664},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.37783387303352356},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3491275906562805},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26505762338638306},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.25606679916381836},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1250191628932953},{"id":"https://openalex.org/C34447519","wikidata":"https://www.wikidata.org/wiki/Q179522","display_name":"Market economy","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","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},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","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":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004843","descriptor_name":"Epistasis, Genetic","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":"D020407","descriptor_name":"Internet","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":"D025941","descriptor_name":"Protein Interaction Mapping","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":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","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}],"locations_count":9,"locations":[{"id":"doi:10.1093/nar/gkt1192","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt1192","pdf_url":"https://academic.oup.com/nar/article-pdf/42/D1/D1269/3624945/gkt1192.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:24271398","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24271398","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.814.8024","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.814.8024","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/bb/ba/gkt1192.PMC3965056.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.893.6944","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.893.6944","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/42/D1/D1269.full-text-lowres.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.894.9967","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.894.9967","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/early/2013/11/23/nar.gkt1192.full-text-lowres.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.897.433","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.897.433","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://healthsciences.ucsd.edu/som/medicine/research/labs/ideker/publications/Documents/DutkowskietalNeXO2013.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.898.7812","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.898.7812","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/early/2013/11/23/nar.gkt1192.full.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.905.1738","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.905.1738","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://nar.oxfordjournals.org/content/42/D1/D1269.full.pdf","raw_type":"text"},{"id":"pmh:oai:europepmc.org:2943192","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3965056","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/nar/gkt1192","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkt1192","pdf_url":"https://academic.oup.com/nar/article-pdf/42/D1/D1269/3624945/gkt1192.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"is_oa":true,"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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2117405098.pdf","grobid_xml":"https://content.openalex.org/works/W2117405098.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W1806630989","https://openalex.org/W1970250905","https://openalex.org/W2074755764","https://openalex.org/W2095237338","https://openalex.org/W2102221598","https://openalex.org/W2103017472","https://openalex.org/W2104990432","https://openalex.org/W2113142309","https://openalex.org/W2134559909","https://openalex.org/W2141545183","https://openalex.org/W2143962926","https://openalex.org/W2999820612"],"related_works":["https://openalex.org/W2366107444","https://openalex.org/W4388145910","https://openalex.org/W1976205134","https://openalex.org/W2381570729","https://openalex.org/W4248336175","https://openalex.org/W3009369890","https://openalex.org/W2031260042","https://openalex.org/W2391445434","https://openalex.org/W4312490297","https://openalex.org/W2062212388"],"abstract_inverted_index":{"The":[0,83],"Network-extracted":[1],"Ontology":[2],"(NeXO)":[3],"is":[4],"a":[5,25,44],"gene":[6,38,81],"ontology":[7],"inferred":[8],"directly":[9],"from":[10,32],"large-scale":[11],"molecular":[12],"networks.":[13],"While":[14],"most":[15],"ontologies":[16],"are":[17],"constructed":[18],"through":[19],"manual":[20],"expert":[21],"curation,":[22],"NeXO":[23,59,78],"uses":[24],"principled":[26],"computational":[27],"approach":[28],"which":[29],"integrates":[30],"evidence":[31],"hundreds":[33],"of":[34,36,47,57],"thousands":[35],"individual":[37],"and":[39,50,65,72,79,89,105],"protein":[40],"interactions":[41],"to":[42,92],"construct":[43],"global":[45],"hierarchy":[46],"cellular":[48],"components":[49],"processes.":[51],"Here,":[52],"we":[53],"describe":[54],"the":[55,58,80],"development":[56],"Web":[60],"platform":[61,84],"(http://www.nexontology.org)-an":[62],"online":[63],"database":[64],"graphical":[66],"user":[67],"interface":[68],"for":[69,97],"visualizing,":[70],"browsing":[71],"performing":[73],"term":[74],"enrichment":[75],"analysis":[76],"using":[77],"ontology.":[82],"applies":[85],"state-of-the-art":[86],"web":[87],"technology":[88],"visualization":[90],"techniques":[91],"provide":[93],"an":[94],"intuitive":[95],"framework":[96],"investigating":[98],"biological":[99],"machinery":[100],"captured":[101],"by":[102],"both":[103],"data-driven":[104],"manually":[106],"curated":[107],"ontologies.":[108]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":6}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
