{"id":"https://openalex.org/W2152850487","doi":"https://doi.org/10.1186/s13326-015-0009-1","title":"Expanding the mammalian phenotype ontology to support automated exchange of high throughput mouse phenotyping data generated by large-scale mouse knockout screens","display_name":"Expanding the mammalian phenotype ontology to support automated exchange of high throughput mouse phenotyping data generated by large-scale mouse knockout screens","publication_year":2015,"publication_date":"2015-03-24","ids":{"openalex":"https://openalex.org/W2152850487","doi":"https://doi.org/10.1186/s13326-015-0009-1","mag":"2152850487","pmid":"https://pubmed.ncbi.nlm.nih.gov/25825651","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/4378007"},"language":"en","primary_location":{"id":"doi:10.1186/s13326-015-0009-1","doi":"https://doi.org/10.1186/s13326-015-0009-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-015-0009-1","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-015-0009-1","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,"listed_in":["cwts-core","doaj","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-70","russia-white-list-1","vabb-shw"],"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"},"volume":null,"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/s13326-015-0009-1","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5085879565","display_name":"Cynthia L. Smith","orcid":"https://orcid.org/0000-0003-3691-0324","observed_orcids":["https://orcid.org/0000-0003-3691-0324"]},"institutions":[{"id":"https://openalex.org/I4210115256","display_name":"Jackson Laboratory","ror":"https://ror.org/021sy4w91","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210115256"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Cynthia L Smith","raw_affiliation_strings":["Mouse Genome Informatics, The Jackson Laboratory, Bar Harbor, ME, 04609, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Mouse Genome Informatics, The Jackson Laboratory, Bar Harbor, ME, 04609, USA","institution_ids":["https://openalex.org/I4210115256"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006382524","display_name":"Janan T. Eppig","orcid":"https://orcid.org/0000-0003-1652-8072","observed_orcids":["https://orcid.org/0000-0003-1652-8072"]},"institutions":[{"id":"https://openalex.org/I4210115256","display_name":"Jackson Laboratory","ror":"https://ror.org/021sy4w91","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I4210115256"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Janan T Eppig","raw_affiliation_strings":["Mouse Genome Informatics, The Jackson Laboratory, Bar Harbor, ME, 04609, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Mouse Genome Informatics, The Jackson Laboratory, Bar Harbor, ME, 04609, USA","institution_ids":["https://openalex.org/I4210115256"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5006382524"],"corresponding_institution_ids":["https://openalex.org/I4210115256"],"apc_list":{"value":1590,"currency":"USD","value_usd":1590},"apc_paid":{"value":1590,"currency":"USD","value_usd":1590},"fwci":2.761,"has_fulltext":true,"cited_by_count":52,"citation_normalized_percentile":{"value":0.91596839,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":93,"max":99},"biblio":{"volume":"6","issue":"1","first_page":"11","last_page":"11"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9976000189781189,"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":0.9976000189781189,"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/T10215","display_name":"Semantic Web and Ontologies","score":0.0008999999845400453,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0003000000142492354,"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/mammalian-phenotype-ontology","display_name":"Mammalian Phenotype Ontology","score":0.9789999723434448},{"id":"https://openalex.org/keywords/high-throughput-phenotyping","display_name":"high-throughput phenotyping","score":0.9380000233650208},{"id":"https://openalex.org/keywords/automatic-annotation","display_name":"automatic annotation","score":0.6119999885559082},{"id":"https://openalex.org/keywords/international-mouse-phenotyping-consortium","display_name":"International Mouse Phenotyping Consortium","score":0.8690000176429749},{"id":"https://openalex.org/keywords/mouse-genome-informatics","display_name":"Mouse Genome Informatics","score":0.9879999756813049},{"id":"https://openalex.org/keywords/data-standardization","display_name":"data standardization","score":0.6610000133514404}],"concepts":[{"id":"https://openalex.org/C157764524","wikidata":"https://www.wikidata.org/wiki/Q1383412","display_name":"Throughput","level":3,"score":0.7155247926712036},{"id":"https://openalex.org/C127716648","wikidata":"https://www.wikidata.org/wiki/Q104053","display_name":"Phenotype","level":3,"score":0.6846219897270203},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6547254920005798},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.6302360892295837},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.6012380719184875},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5501722097396851},{"id":"https://openalex.org/C31170391","wikidata":"https://www.wikidata.org/wiki/Q188619","display_name":"Hierarchy","level":2,"score":0.5064195394515991},{"id":"https://openalex.org/C191630685","wikidata":"https://www.wikidata.org/wiki/Q4027615","display_name":"Informatics","level":2,"score":0.46937015652656555},{"id":"https://openalex.org/C2778755073","wikidata":"https://www.wikidata.org/wiki/Q10858537","display_name":"Scale (ratio)","level":2,"score":0.4465923011302948},{"id":"https://openalex.org/C15845906","wikidata":"https://www.wikidata.org/wiki/Q1172338","display_name":"Data exchange","level":2,"score":0.41352179646492004},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.401981920003891},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3301149010658264},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21352702379226685},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.206950843334198},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15701386332511902},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.13779383897781372},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C555944384","wikidata":"https://www.wikidata.org/wiki/Q249","display_name":"Wireless","level":2,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"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/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"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/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.0},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1186/s13326-015-0009-1","doi":"https://doi.org/10.1186/s13326-015-0009-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-015-0009-1","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-015-0009-1","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,"listed_in":["cwts-core","doaj","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-70","russia-white-list-1","vabb-shw"],"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":"pmh:oai:europepmc.org:3339638","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4378007","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,"listed_in":[],"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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:4378007","doi":null,"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4378007","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,"listed_in":[],"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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"J Biomed Semantics","raw_type":"Text"},{"id":"pmid:25825651","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25825651","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,"listed_in":[],"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":"Journal Article"},{"id":"pmh:oai:mouseion.jax.org:stfb2015-1062","doi":null,"is_oa":false,"landing_page_url":"https://mouseion.jax.org/stfb2015/65","pdf_url":null,"source":{"id":"https://openalex.org/S4377196421","display_name":"The Mouseion at the JAXlibrary (Jackson Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I4210115256","host_organization_name":"Jackson Laboratory","host_organization_lineage":["https://openalex.org/I4210115256"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Faculty Research 2015","raw_type":"text"}],"best_oa_location":{"id":"doi:10.1186/s13326-015-0009-1","doi":"https://doi.org/10.1186/s13326-015-0009-1","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-015-0009-1","pdf_url":"https://jbiomedsem.biomedcentral.com/counter/pdf/10.1186/s13326-015-0009-1","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,"listed_in":["cwts-core","doaj","doyens","jufo-1","ki-jl-1","medline","norway-1","oarl","poland-70","russia-white-list-1","vabb-shw"],"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":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G3938711962","display_name":"Mouse Genome Database","funder_award_id":"U41HG000330","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G9000917281","display_name":"Cancer Center Support (CORE) Grant","funder_award_id":"P30CA034196","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2152850487.pdf","grobid_xml":"https://content.openalex.org/works/W2152850487.grobid-xml"},"referenced_works_count":14,"referenced_works":["https://openalex.org/W11653250","https://openalex.org/W1514553736","https://openalex.org/W2006719549","https://openalex.org/W2010798628","https://openalex.org/W2077341370","https://openalex.org/W2089599444","https://openalex.org/W2099095082","https://openalex.org/W2127507437","https://openalex.org/W2147455644","https://openalex.org/W2153456016","https://openalex.org/W2153759415","https://openalex.org/W2154331071","https://openalex.org/W2160971829","https://openalex.org/W2168372732"],"related_works":["https://openalex.org/W2006719549","https://openalex.org/W2154331071","https://openalex.org/W2010798628","https://openalex.org/W2126434293","https://openalex.org/W4307468105","https://openalex.org/W1866082553","https://openalex.org/W1515432244","https://openalex.org/W2406331563","https://openalex.org/W2024816413","https://openalex.org/W2117398040"],"abstract_inverted_index":{"BACKGROUND:":[0],"A":[1],"vast":[2],"array":[3],"of":[4,55,97,118,159,178],"data":[5,41,51,56,76,99,139,150,155,161,189],"is":[6,21,26,35,63,86,170],"about":[7],"to":[8,65,73,122,162],"emerge":[9],"from":[10,100,184],"the":[11,59,88,94,119,125,145,148],"large":[12,136],"scale":[13,137],"high-throughput":[14,60,187],"mouse":[15],"knockout":[16],"phenotyping":[17,61,103,138,188],"projects":[18],"worldwide.":[19],"It":[20],"critical":[22],"that":[23],"this":[24],"information":[25],"captured":[27],"in":[28,93,115],"a":[29],"standardized":[30],"manner,":[31],"made":[32,114],"accessible,":[33],"and":[34,46,71,154,167,202,207],"fully":[36],"integrated":[37],"with":[38,109,190,196],"other":[39,168,208],"phenotype":[40,50,75,198],"sets":[42,140],"for":[43,152],"comprehensive":[44,192],"querying":[45],"analysis":[47],"across":[48],"all":[49],"types.":[52],"The":[53,80],"volume":[54],"generated":[57,127],"by":[58,128],"screens":[62],"expected":[64],"grow":[66],"exponentially,":[67],"thus,":[68],"automated":[69,95,157],"methods":[70],"standards":[72],"exchange":[74],"are":[77],"required.":[78],"RESULTS:":[79],"IMPC":[81],"(International":[82],"Mouse":[83],"Phenotyping":[84],"Consortium)":[85],"using":[87,144],"Mammalian":[89],"Phenotype":[90],"(MP)":[91],"ontology":[92,121],"annotation":[96,153],"phenodeviant":[98],"high":[101,130],"throughput":[102,131],"screens.":[104,132],"287":[105],"new":[106],"term":[107],"additions":[108],"additional":[110],"hierarchy":[111],"revisions":[112],"were":[113],"multiple":[116],"branches":[117],"MP":[120,146],"accurately":[123],"describe":[124],"results":[126],"these":[129,135,160,179,201],"CONCLUSIONS:":[133],"Because":[134],"will":[141,182],"be":[142],"reported":[143],"as":[147],"common":[149],"standard":[151],"exchange,":[156],"importation":[158],"MGI":[163,206],"(Mouse":[164],"Genome":[165],"Informatics)":[166],"resources":[169],"possible":[171],"without":[172],"curatorial":[173],"effort.":[174],"Maximum":[175],"biomedical":[176],"value":[177],"mutant":[180],"mice":[181],"come":[183],"integrating":[185],"primary":[186],"secondary,":[191],"phenotypic":[193],"analyses":[194],"combined":[195],"published":[197],"details":[199],"on":[200],"related":[203],"mutants":[204],"at":[205],"resources.":[209]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":5},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":5}],"updated_date":"2026-11-04T10:54:05.112534","created_date":"2016-06-24T00:00:00"}
