{"id":"https://openalex.org/W2942410019","doi":"https://doi.org/10.1186/s12859-019-2721-9","title":"Cells in ExperimentaL Life Sciences (CELLS-2018): capturing the knowledge of normal and diseased cells with ontologies","display_name":"Cells in ExperimentaL Life Sciences (CELLS-2018): capturing the knowledge of normal and diseased cells with ontologies","publication_year":2019,"publication_date":"2019-04-01","ids":{"openalex":"https://openalex.org/W2942410019","doi":"https://doi.org/10.1186/s12859-019-2721-9","mag":"2942410019","pmid":"https://pubmed.ncbi.nlm.nih.gov/31272374"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-2721-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2721-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2721-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"editorial","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2721-9","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5058806280","display_name":"Sirarat Sarntivijai","orcid":"https://orcid.org/0000-0002-2548-641X"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Sirarat Sarntivijai","raw_affiliation_strings":["ELIXIR, Wellcome Genome Campus, Hinxton, Cambridge, UK"],"affiliations":[{"raw_affiliation_string":"ELIXIR, Wellcome Genome Campus, Hinxton, Cambridge, UK","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024742201","display_name":"Yongqun He","orcid":"https://orcid.org/0000-0001-9189-9661"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan\u2013Ann Arbor","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yongqun He","raw_affiliation_strings":["University of Michigan Medical School, Ann Arbor, MI, USA. yongqunh@med.umich.edu","University of Michigan Medical School, Ann Arbor, MI, USA"],"affiliations":[{"raw_affiliation_string":"University of Michigan Medical School, Ann Arbor, MI, USA. yongqunh@med.umich.edu","institution_ids":[]},{"raw_affiliation_string":"University of Michigan Medical School, Ann Arbor, MI, USA","institution_ids":["https://openalex.org/I27837315"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5084833749","display_name":"Alexander D. Diehl","orcid":"https://orcid.org/0000-0001-9990-8331"},"institutions":[{"id":"https://openalex.org/I63190737","display_name":"University at Buffalo, State University of New York","ror":"https://ror.org/01y64my43","country_code":"US","type":"education","lineage":["https://openalex.org/I63190737"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alexander D. Diehl","raw_affiliation_strings":["Department of Biomedical Informatics, Jacobs School of Medicine and Biomedical Sciences, University at Buffalo, Buffalo, NY, USA"],"affiliations":[{"raw_affiliation_string":"Department of Biomedical Informatics, Jacobs School of Medicine and Biomedical Sciences, University at Buffalo, Buffalo, NY, USA","institution_ids":["https://openalex.org/I63190737"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5024742201"],"corresponding_institution_ids":["https://openalex.org/I27837315"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.03094566,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"20","issue":"S5","first_page":"183","last_page":"183"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9984999895095825,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9984999895095825,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.9937999844551086,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9787999987602234,"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":0.8549648523330688},{"id":"https://openalex.org/keywords/knowledge-representation-and-reasoning","display_name":"Knowledge representation and reasoning","score":0.5126487612724304},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49580320715904236},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.4707411229610443},{"id":"https://openalex.org/keywords/open-biomedical-ontologies","display_name":"Open Biomedical Ontologies","score":0.45308202505111694},{"id":"https://openalex.org/keywords/cell","display_name":"Cell","score":0.4458011984825134},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4096081852912903},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.35932594537734985},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.35001882910728455},{"id":"https://openalex.org/keywords/upper-ontology","display_name":"Upper ontology","score":0.3449559211730957},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27135711908340454},{"id":"https://openalex.org/keywords/suggested-upper-merged-ontology","display_name":"Suggested Upper Merged Ontology","score":0.22386467456817627},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.1586451530456543},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.14006835222244263},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13068392872810364},{"id":"https://openalex.org/keywords/epistemology","display_name":"Epistemology","score":0.07653000950813293}],"concepts":[{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.8549648523330688},{"id":"https://openalex.org/C161301231","wikidata":"https://www.wikidata.org/wiki/Q3478658","display_name":"Knowledge representation and reasoning","level":2,"score":0.5126487612724304},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49580320715904236},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.4707411229610443},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.45308202505111694},{"id":"https://openalex.org/C1491633281","wikidata":"https://www.wikidata.org/wiki/Q7868","display_name":"Cell","level":2,"score":0.4458011984825134},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4096081852912903},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.35932594537734985},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.35001882910728455},{"id":"https://openalex.org/C78726541","wikidata":"https://www.wikidata.org/wiki/Q3882785","display_name":"Upper ontology","level":3,"score":0.3449559211730957},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27135711908340454},{"id":"https://openalex.org/C50971890","wikidata":"https://www.wikidata.org/wiki/Q7635093","display_name":"Suggested Upper Merged Ontology","level":4,"score":0.22386467456817627},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.1586451530456543},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.14006835222244263},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13068392872810364},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.07653000950813293},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001690","descriptor_name":"Biological Science Disciplines","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003226","descriptor_name":"Congresses as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003226","descriptor_name":"Congresses as Topic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003226","descriptor_name":"Congresses as Topic","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012106","descriptor_name":"Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012106","descriptor_name":"Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012106","descriptor_name":"Research","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1186/s12859-019-2721-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2721-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2721-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31272374","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31272374","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:deepblue.lib.umich.edu:2027.42/148823","is_oa":false,"landing_page_url":"http://hdl.handle.net/2027.42/148823","pdf_url":null,"source":{"id":"https://openalex.org/S4306400393","display_name":"Deep Blue (University of Michigan)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I27837315","host_organization_name":"University of Michigan","host_organization_lineage":["https://openalex.org/I27837315"],"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":"Article"},{"id":"pmh:oai:doaj.org/article:dfea1ca2c35a4fa480a98d5f0c5e6a68","is_oa":true,"landing_page_url":"https://doaj.org/article/dfea1ca2c35a4fa480a98d5f0c5e6a68","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 20, Iss S5, Pp 227-230 (2019)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5527885","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6509796","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-2721-9","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-2721-9","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-019-2721-9","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5299999713897705,"display_name":"Responsible consumption and production","id":"https://metadata.un.org/sdg/12"}],"awards":[{"id":"https://openalex.org/G3207221476","display_name":null,"funder_award_id":"UL1TR001412","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G3391060122","display_name":null,"funder_award_id":"U54HL127624","funder_id":"https://openalex.org/F4320337338","funder_display_name":"National Heart, Lung, and Blood Institute"},{"id":"https://openalex.org/G6147947074","display_name":null,"funder_award_id":"UL1TR001412","funder_id":"https://openalex.org/F4320337472","funder_display_name":"National Center for Advancing Translational Sciences"}],"funders":[{"id":"https://openalex.org/F4320337338","display_name":"National Heart, Lung, and Blood Institute","ror":"https://ror.org/012pb6c26"},{"id":"https://openalex.org/F4320337472","display_name":"National Center for Advancing Translational Sciences","ror":"https://ror.org/04pw6fb54"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2942410019.pdf","grobid_xml":"https://content.openalex.org/works/W2942410019.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W2021074129","https://openalex.org/W2105836514","https://openalex.org/W2106830745","https://openalex.org/W2113142309","https://openalex.org/W2171535770","https://openalex.org/W2302501749","https://openalex.org/W2462007197","https://openalex.org/W2605810679","https://openalex.org/W2611714487","https://openalex.org/W2766959028","https://openalex.org/W2773787581","https://openalex.org/W2776359697","https://openalex.org/W2776907122","https://openalex.org/W2776957016","https://openalex.org/W2778380421","https://openalex.org/W2780409375","https://openalex.org/W2780517934","https://openalex.org/W2787171652","https://openalex.org/W2792468812","https://openalex.org/W2795381779","https://openalex.org/W2907421603","https://openalex.org/W2907554417","https://openalex.org/W2913221496","https://openalex.org/W2941166583","https://openalex.org/W2941868238","https://openalex.org/W2941992511","https://openalex.org/W2942448186"],"related_works":["https://openalex.org/W1506177826","https://openalex.org/W2726617685","https://openalex.org/W2127299687","https://openalex.org/W2111194626","https://openalex.org/W1794266373","https://openalex.org/W1562796463","https://openalex.org/W2399880385","https://openalex.org/W2397553363","https://openalex.org/W2074013882","https://openalex.org/W4206428734"],"abstract_inverted_index":{"Cell":[0,68,76,88],"cultures":[1],"and":[2,45,57,71,95,105,123,131,149,169],"cell":[3,43,99,121,140,145,167],"lines":[4],"are":[5],"widely":[6],"used":[7,102,126],"in":[8,29,48,81,103,127,164,171],"life":[9],"science":[10],"experiments.":[11],"In":[12,84],"conjunction":[13],"with":[14],"the":[15,23,66,72,82,87,115,160],"2018":[16],"International":[17,25],"Conference":[18],"on":[19,27,35,114,134,143,159],"Biomedical":[20],"Ontology":[21,69,73,90],"(ICBO-2018),":[22],"2nd":[24],"Workshop":[26],"Cells":[28],"ExperimentaL":[30],"Life":[31],"Science":[32],"(CELLS-2018)":[33],"focused":[34,158],"two":[36],"themes":[37],"of":[38,117],"knowledge":[39],"representation,":[40,86],"for":[41,46,74],"newly-discovered":[42,166],"types":[44,122,141,168],"cells":[47,101,170],"disease":[49,172],"states.":[50,173],"This":[51],"workshop":[52],"included":[53,111],"five":[54],"oral":[55],"presentations":[56,110],"a":[58,112,132],"general":[59,155],"discussion":[60,156],"session.":[61],"Two":[62],"new":[63,135],"ontologies,":[64],"including":[65],"Cancer":[67],"(CCL)":[70],"Stem":[75],"Investigations":[77],"(OSCI),":[78],"were":[79],"reported":[80],"workshop.":[83],"another":[85],"Line":[89],"(CLO)":[91],"framework":[92],"was":[93],"applied":[94],"extended":[96],"to":[97,119],"represent":[98],"line":[100],"China":[104],"their":[106,150],"Chinese":[107],"representation.":[108,153],"Other":[109],"report":[113],"application":[116],"ontologies":[118],"cross-compare":[120],"marker":[124],"patterns":[125,163],"flow":[128],"cytometry":[129],"studies,":[130],"presentation":[133],"experimental":[136],"findings":[137],"about":[138],"novel":[139],"based":[142],"single":[144],"RNA":[146],"sequencing":[147],"assay":[148],"corresponding":[151],"ontological":[152],"The":[154],"session":[157],"ontology":[161],"design":[162],"representing":[165]},"counts_by_year":[],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
