{"id":"https://openalex.org/W3196560000","doi":"https://doi.org/10.1186/s13326-021-00250-4","title":"CIDO ontology updates and secondary analysis of host responses to COVID-19 infection based on ImmPort reports and literature","display_name":"CIDO ontology updates and secondary analysis of host responses to COVID-19 infection based on ImmPort reports and literature","publication_year":2021,"publication_date":"2021-08-28","ids":{"openalex":"https://openalex.org/W3196560000","doi":"https://doi.org/10.1186/s13326-021-00250-4","mag":"3196560000","pmid":"https://pubmed.ncbi.nlm.nih.gov/34454610"},"language":"en","primary_location":{"id":"doi:10.1186/s13326-021-00250-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-021-00250-4","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-021-00250-4","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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":"Journal of Biomedical Semantics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-021-00250-4","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5043564973","display_name":"Anthony Huffman","orcid":"https://orcid.org/0000-0002-0576-550X"},"institutions":[{"id":"https://openalex.org/I27837315","display_name":"University of Michigan","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Anthony Huffman","raw_affiliation_strings":["Department of Computational Medicine and Biology, University of Michigan, Ann Arbor, MI, 48109, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computational Medicine and Biology, University of Michigan, Ann Arbor, MI, 48109, USA","institution_ids":["https://openalex.org/I27837315"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088261794","display_name":"Anna Maria Masci","orcid":"https://orcid.org/0000-0003-1940-6740"},"institutions":[{"id":"https://openalex.org/I170897317","display_name":"Duke University","ror":"https://ror.org/00py81415","country_code":"US","type":"education","lineage":["https://openalex.org/I170897317"]},{"id":"https://openalex.org/I4210095140","display_name":"National Institute of Environmental Health Sciences","ror":"https://ror.org/00j4k1h63","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I4210095140"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Anna Maria Masci","raw_affiliation_strings":["Department of Biostatistics and Bioinformatics, Duke University School of Medicine, Durham, NC, 27710, USA","Office of Data Science, National Institute of Environmental Health Sciences, 530 Davis Drive, Research Triangle Park, NC, 27560, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biostatistics and Bioinformatics, Duke University School of Medicine, Durham, NC, 27710, USA","institution_ids":["https://openalex.org/I170897317"]},{"raw_affiliation_string":"Office of Data Science, National Institute of Environmental Health Sciences, 530 Davis Drive, Research Triangle Park, NC, 27560, USA","institution_ids":["https://openalex.org/I4210095140"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100652277","display_name":"Jie Zheng","orcid":"https://orcid.org/0000-0002-2999-0103"},"institutions":[{"id":"https://openalex.org/I79576946","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10","country_code":"US","type":"education","lineage":["https://openalex.org/I79576946"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jie Zheng","raw_affiliation_strings":["Department of Genetics, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA, 19104, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Genetics, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA, 19104, USA","institution_ids":["https://openalex.org/I79576946"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006812940","display_name":"Nasim Sanati","orcid":"https://orcid.org/0000-0001-6681-0418"},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nasim Sanati","raw_affiliation_strings":["Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, 97239, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, 97239, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076270443","display_name":"Timothy Brunson","orcid":null},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Timothy Brunson","raw_affiliation_strings":["Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, 97239, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, 97239, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5006718188","display_name":"Guanming Wu","orcid":"https://orcid.org/0000-0001-8196-1177"},"institutions":[{"id":"https://openalex.org/I165690674","display_name":"Oregon Health & Science University","ror":"https://ror.org/009avj582","country_code":"US","type":"education","lineage":["https://openalex.org/I165690674"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Guanming Wu","raw_affiliation_strings":["Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, 97239, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Medical Informatics and Clinical Epidemiology, Oregon Health and Science University, Portland, OR, 97239, USA","institution_ids":["https://openalex.org/I165690674"]}]},{"author_position":"last","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","ror":"https://ror.org/00jmfr291","country_code":"US","type":"education","lineage":["https://openalex.org/I27837315"]},{"id":"https://openalex.org/I4210117557","display_name":"Michigan Center for Translational Pathology","ror":"https://ror.org/027t4kk23","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210114445","https://openalex.org/I4210117557"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yongqun He","raw_affiliation_strings":["Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI, 48109, USA. yongqunh@med.umich.edu","Department of Computational Medicine and Biology, University of Michigan, Ann Arbor, MI, 48109, USA. yongqunh@med.umich.edu","Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI, 48109, USA. yongqunh@med.umich.edu","Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI, 48109, USA. yongqunh@med.umich.edu","Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI, 48109, USA"],"raw_orcid":"https://orcid.org/0000-0001-9189-9661","affiliations":[{"raw_affiliation_string":"Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI, 48109, USA. yongqunh@med.umich.edu","institution_ids":["https://openalex.org/I4210117557"]},{"raw_affiliation_string":"Department of Computational Medicine and Biology, University of Michigan, Ann Arbor, MI, 48109, USA. yongqunh@med.umich.edu","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI, 48109, USA. yongqunh@med.umich.edu","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI, 48109, USA. yongqunh@med.umich.edu","institution_ids":["https://openalex.org/I27837315"]},{"raw_affiliation_string":"Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI, 48109, USA","institution_ids":["https://openalex.org/I27837315"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5024742201"],"corresponding_institution_ids":["https://openalex.org/I27837315","https://openalex.org/I4210117557"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459},"apc_paid":{"value":1190,"currency":"GBP","value_usd":1459},"fwci":0.7327,"has_fulltext":true,"cited_by_count":10,"citation_normalized_percentile":{"value":0.69303365,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":97},"biblio":{"volume":"12","issue":"1","first_page":"18","last_page":"18"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.38909998536109924,"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":0.38909998536109924,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.2574999928474426,"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/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.20739999413490295,"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":0.6191787719726562},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5131197571754456},{"id":"https://openalex.org/keywords/coronavirus-disease-2019","display_name":"Coronavirus disease 2019 (COVID-19)","score":0.4737718403339386},{"id":"https://openalex.org/keywords/coronavirus","display_name":"Coronavirus","score":0.45584362745285034},{"id":"https://openalex.org/keywords/gene-ontology","display_name":"Gene ontology","score":0.45389223098754883},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.43746817111968994},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.348638653755188},{"id":"https://openalex.org/keywords/disease","display_name":"Disease","score":0.3270188271999359},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26813310384750366},{"id":"https://openalex.org/keywords/medicine","display_name":"Medicine","score":0.25702667236328125},{"id":"https://openalex.org/keywords/infectious-disease","display_name":"Infectious disease (medical specialty)","score":0.2086903154850006},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1360841691493988},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.09484371542930603}],"concepts":[{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.6191787719726562},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5131197571754456},{"id":"https://openalex.org/C3008058167","wikidata":"https://www.wikidata.org/wiki/Q84263196","display_name":"Coronavirus disease 2019 (COVID-19)","level":4,"score":0.4737718403339386},{"id":"https://openalex.org/C2777648638","wikidata":"https://www.wikidata.org/wiki/Q57751738","display_name":"Coronavirus","level":5,"score":0.45584362745285034},{"id":"https://openalex.org/C2987395477","wikidata":"https://www.wikidata.org/wiki/Q135085","display_name":"Gene ontology","level":4,"score":0.45389223098754883},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.43746817111968994},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.348638653755188},{"id":"https://openalex.org/C2779134260","wikidata":"https://www.wikidata.org/wiki/Q12136","display_name":"Disease","level":2,"score":0.3270188271999359},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26813310384750366},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.25702667236328125},{"id":"https://openalex.org/C524204448","wikidata":"https://www.wikidata.org/wiki/Q788926","display_name":"Infectious disease (medical specialty)","level":3,"score":0.2086903154850006},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1360841691493988},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09484371542930603},{"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/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C142724271","wikidata":"https://www.wikidata.org/wiki/Q7208","display_name":"Pathology","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000076662","descriptor_name":"Host Microbial Interactions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000276","qualifier_name":"immunology","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","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},{"descriptor_ui":"D064229","descriptor_name":"Biological Ontologies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064370","descriptor_name":"Spike Glycoprotein, Coronavirus","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1186/s13326-021-00250-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-021-00250-4","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-021-00250-4","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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":"Journal of Biomedical Semantics","raw_type":"journal-article"},{"id":"pmid:34454610","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34454610","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":"Journal of biomedical semantics","raw_type":null},{"id":"pmh:oai:deepblue.lib.umich.edu:2027.42/173933","is_oa":false,"landing_page_url":"https://hdl.handle.net/2027.42/173933","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":"Journal Article"},{"id":"pmh:oai:doaj.org/article:c6d1b00ddd144402bda2673dba1ae06a","is_oa":true,"landing_page_url":"https://doaj.org/article/c6d1b00ddd144402bda2673dba1ae06a","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Biomedical Semantics, Vol 12, Iss 1, Pp 1-13 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8400831","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8400831","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":"J Biomed Semantics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13326-021-00250-4","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-021-00250-4","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-021-00250-4","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"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":"Journal of Biomedical Semantics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.8500000238418579,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G4293237771","display_name":null,"funder_award_id":"1UH2AI132931","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"},{"id":"https://openalex.org/G5552825071","display_name":null,"funder_award_id":"1UH2AI132931","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320324787","display_name":"Peking University","ror":"https://ror.org/02v51f717"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3196560000.pdf","grobid_xml":"https://content.openalex.org/works/W3196560000.grobid-xml"},"referenced_works_count":49,"referenced_works":["https://openalex.org/W130836694","https://openalex.org/W1802346448","https://openalex.org/W2011667634","https://openalex.org/W2099129294","https://openalex.org/W2113142309","https://openalex.org/W2120801007","https://openalex.org/W2123152121","https://openalex.org/W2142635855","https://openalex.org/W2161074777","https://openalex.org/W2163827272","https://openalex.org/W2404810405","https://openalex.org/W2406532406","https://openalex.org/W2531883117","https://openalex.org/W2605343262","https://openalex.org/W2783839275","https://openalex.org/W2792468812","https://openalex.org/W2898389621","https://openalex.org/W3009912996","https://openalex.org/W3013166012","https://openalex.org/W3013871850","https://openalex.org/W3019181748","https://openalex.org/W3022435472","https://openalex.org/W3025320502","https://openalex.org/W3032774217","https://openalex.org/W3035434194","https://openalex.org/W3041319886","https://openalex.org/W3043831218","https://openalex.org/W3044811073","https://openalex.org/W3046714711","https://openalex.org/W3047144258","https://openalex.org/W3047159181","https://openalex.org/W3047855637","https://openalex.org/W3080487846","https://openalex.org/W3080714364","https://openalex.org/W3080981445","https://openalex.org/W3091814234","https://openalex.org/W3118773226","https://openalex.org/W3122093659","https://openalex.org/W3125828128","https://openalex.org/W3133980772","https://openalex.org/W3134208712","https://openalex.org/W3134376424","https://openalex.org/W3143879276","https://openalex.org/W3144598274","https://openalex.org/W3155452054","https://openalex.org/W3155952134","https://openalex.org/W3156501804","https://openalex.org/W3180301457","https://openalex.org/W6713748237"],"related_works":["https://openalex.org/W4382894326","https://openalex.org/W3035105474","https://openalex.org/W4205698903","https://openalex.org/W4294968941","https://openalex.org/W4283819461","https://openalex.org/W4390279739","https://openalex.org/W4205413867","https://openalex.org/W3179695362","https://openalex.org/W3015753260","https://openalex.org/W2393581236"],"abstract_inverted_index":{"BACKGROUND:":[0],"With":[1],"COVID-19":[2,74,236,314,352],"still":[3],"in":[4,69,73,127,251,259,271,325],"its":[5,200],"pandemic":[6],"stage,":[7],"extensive":[8],"research":[9],"has":[10,50],"generated":[11,278],"increasing":[12],"amounts":[13],"of":[14,27,37,43,71,107,158,220,233,246,283,331,344,348],"data":[15,149],"and":[16,34,66,121,146,165,208,226,256,269,302,323,336],"knowledge.":[17],"As":[18,42],"many":[19],"studies":[20,53,164,237,315],"are":[21],"published":[22],"within":[23],"a":[24,244],"short":[25],"span":[26],"time,":[28],"we":[29],"often":[30],"lose":[31],"an":[32],"integrative":[33,285],"comprehensive":[35,342],"picture":[36],"host-coronavirus":[38],"interaction":[39],"(HCI)":[40],"mechanisms.":[41],"early":[44],"April":[45],"2021,":[46],"the":[47,89,95,105,115,128,143,159,175,281,307,319,329,345],"ImmPort":[48,103,130,163,177,313],"database":[49],"stored":[51],"7":[52],"(with":[54],"6":[55,129,176],"having":[56],"details)":[57],"that":[58,88,243],"cover":[59],"topics":[60,172],"including":[61,199],"molecular":[62,346],"immune":[63],"signatures,":[64],"epitopes,":[65],"sex":[67],"differences":[68],"terms":[70],"mortality":[72],"patients.":[75,261,304],"The":[76,110,171,333],"Coronavirus":[77],"Infectious":[78],"Disease":[79],"Ontology":[80,135],"(CIDO)":[81],"represents":[82],"basic":[83],"HCI":[84,160,192],"information.":[85],"We":[86],"hypothesize":[87],"CIDO":[90,111,144,185,197],"can":[91],"be":[92,295],"used":[93,113],"as":[94,114],"platform":[96,117],"to":[97,141,154,181,228,279,294,328,351],"represent":[98],"newly":[99,123,267],"recorded":[100],"information":[101],"from":[102,161],"leading":[104,327],"reinforcement":[106],"CIDO.":[108,229,272,332],"METHODS:":[109],"was":[112,139,151,194,277,292],"semantic":[116],"for":[118,196,298],"logically":[119],"modeling":[120],"representing":[122],"identified":[124,180,225],"knowledge":[125,193],"reported":[126],"studies.":[131],"A":[132,273],"recursive":[133,308],"eXtensible":[134],"Development":[136],"(XOD)":[137],"strategy":[138],"established":[140],"support":[142],"representation":[145],"enhancement.":[147],"Secondary":[148],"analysis":[150,232,339],"also":[152,224],"performed":[153],"analyze":[155],"different":[156,206],"aspects":[157],"these":[162],"other":[166,214],"related":[167,191],"literature":[168],"reports.":[169],"RESULTS:":[170],"covered":[173],"by":[174,211],"papers":[178],"were":[179,223,249,266,316,321],"overlap":[182],"with":[183,202,213,238],"existing":[184],"representation.":[186,287],"SARS-CoV-2":[187],"viral":[188],"S":[189,216],"protein":[190],"emphasized":[195],"modeling,":[198],"binding":[201],"ACE2,":[203],"mutations":[204],"causing":[205],"variants,":[207],"epitope":[209],"homology":[210],"comparison":[212],"coronavirus":[215],"proteins.":[217],"Different":[218],"types":[219],"cytokine":[221,239],"signatures":[222],"added":[227],"Our":[230],"secondary":[231],"two":[234],"cohort":[235],"panel":[240],"detection":[241],"found":[242,293],"total":[245],"11":[247],"cytokines":[248,258],"up-regulated":[250],"female":[252,303],"patients":[253,301],"after":[254],"infection":[255],"8":[257],"male":[260,300],"These":[262],"sex-specific":[263],"gene":[264],"responses":[265,350],"modeled":[268,322],"represented":[270,324],"new":[274,312],"DL":[275],"query":[276],"demonstrate":[280],"benefits":[282],"such":[284],"ontology":[286,335],"Furthermore,":[288],"IL-10":[289],"signaling":[290],"pathway":[291],"statistically":[296],"significant":[297],"both":[299],"CONCLUSION:":[305],"Using":[306],"XOD":[309],"strategy,":[310],"six":[311],"systematically":[317],"reviewed,":[318],"results":[320],"CIDO,":[326],"enhancement":[330],"enhanced":[334],"further":[337],"seconary":[338],"supported":[340],"more":[341],"understanding":[343],"mechanism":[347],"host":[349],"infection.":[353]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":4}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
