{"id":"https://openalex.org/W2440300016","doi":"https://doi.org/10.1109/jbhi.2015.2464353","title":"eClims: An Extensible and Dynamic Integration Framework for Biomedical Information Systems","display_name":"eClims: An Extensible and Dynamic Integration Framework for Biomedical Information Systems","publication_year":2015,"publication_date":"2015-08-04","ids":{"openalex":"https://openalex.org/W2440300016","doi":"https://doi.org/10.1109/jbhi.2015.2464353","mag":"2440300016","pmid":"https://pubmed.ncbi.nlm.nih.gov/26259204"},"language":"en","primary_location":{"id":"doi:10.1109/jbhi.2015.2464353","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2015.2464353","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Journal of Biomedical and Health Informatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042004717","display_name":"Marinette Savonnet","orcid":"https://orcid.org/0000-0003-0449-5277"},"institutions":[{"id":"https://openalex.org/I4210136953","display_name":"Laboratoire d\u2019\u00c9lectronique, Informatique et Image","ror":"https://ror.org/04gnd7c94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I190752583","https://openalex.org/I190861549","https://openalex.org/I4210118524","https://openalex.org/I4210134562","https://openalex.org/I4210136953","https://openalex.org/I4210159245"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I177064439","display_name":"Universit\u00e9 de Bourgogne","ror":"https://ror.org/03k1bsr36","country_code":"FR","type":"education","lineage":["https://openalex.org/I177064439"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Marinette Savonnet","raw_affiliation_strings":["LE2I Laboratory, UMR CNRS 6306, University of Bourgogne Franche-Comt\u00e9, Dijon, France","Le2i - Laboratoire Electronique, Informatique et Image [UMR6306] (Universit\u00e9 de Bourgogne - Laboratoire Le2i - UFR Sciences et Techniques - BP 47870 - 21078 DIJON CEDEX - France)"],"affiliations":[{"raw_affiliation_string":"LE2I Laboratory, UMR CNRS 6306, University of Bourgogne Franche-Comt\u00e9, Dijon, France","institution_ids":["https://openalex.org/I177064439","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Le2i - Laboratoire Electronique, Informatique et Image [UMR6306] (Universit\u00e9 de Bourgogne - Laboratoire Le2i - UFR Sciences et Techniques - BP 47870 - 21078 DIJON CEDEX - France)","institution_ids":["https://openalex.org/I4210136953","https://openalex.org/I177064439"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009626481","display_name":"\u00c9ric Leclercq","orcid":"https://orcid.org/0000-0001-6382-2288"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"funder","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I4210136953","display_name":"Laboratoire d\u2019\u00c9lectronique, Informatique et Image","ror":"https://ror.org/04gnd7c94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I190752583","https://openalex.org/I190861549","https://openalex.org/I4210118524","https://openalex.org/I4210134562","https://openalex.org/I4210136953","https://openalex.org/I4210159245"]},{"id":"https://openalex.org/I177064439","display_name":"Universit\u00e9 de Bourgogne","ror":"https://ror.org/03k1bsr36","country_code":"FR","type":"education","lineage":["https://openalex.org/I177064439"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Eric Leclercq","raw_affiliation_strings":["LE2I Laboratory, UMR CNRS 6306, University of Bourgogne Franche-Comt\u00e9, Dijon, France","Le2i - Laboratoire Electronique, Informatique et Image [UMR6306] (Universit\u00e9 de Bourgogne - Laboratoire Le2i - UFR Sciences et Techniques - BP 47870 - 21078 DIJON CEDEX - France)"],"affiliations":[{"raw_affiliation_string":"LE2I Laboratory, UMR CNRS 6306, University of Bourgogne Franche-Comt\u00e9, Dijon, France","institution_ids":["https://openalex.org/I177064439","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Le2i - Laboratoire Electronique, Informatique et Image [UMR6306] (Universit\u00e9 de Bourgogne - Laboratoire Le2i - UFR Sciences et Techniques - BP 47870 - 21078 DIJON CEDEX - France)","institution_ids":["https://openalex.org/I4210136953","https://openalex.org/I177064439"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010599644","display_name":"Pierre Naubourg","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Pierre Naubourg","raw_affiliation_strings":["CLIPP CGFL, Dijon, France","CLIPP - Plate-forme Prot\u00e9omique CLIPP - Clinical and Innovation Proteomic Platform [Dijon] (CGFL - 1 rue du Professeur Marion - BP 77980 - 21079 Dijon cedex - France)"],"affiliations":[{"raw_affiliation_string":"CLIPP CGFL, Dijon, France","institution_ids":[]},{"raw_affiliation_string":"CLIPP - Plate-forme Prot\u00e9omique CLIPP - Clinical and Innovation Proteomic Platform [Dijon] (CGFL - 1 rue du Professeur Marion - BP 77980 - 21079 Dijon cedex - France)","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5042004717"],"corresponding_institution_ids":["https://openalex.org/I4210136953","https://openalex.org/I1294671590","https://openalex.org/I177064439"],"apc_list":null,"apc_paid":null,"fwci":0.62860183,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.8619651,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"20","issue":"6","first_page":"1640","last_page":"1649"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.9983000159263611,"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"}},"topics":[{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.9983000159263611,"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/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9975000023841858,"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/T11986","display_name":"Scientific Computing and Data Management","score":0.9922000169754028,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8474757075309753},{"id":"https://openalex.org/keywords/data-integration","display_name":"Data integration","score":0.5872943997383118},{"id":"https://openalex.org/keywords/ontology-based-data-integration","display_name":"Ontology-based data integration","score":0.5401228070259094},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.5149953365325928},{"id":"https://openalex.org/keywords/schema","display_name":"Schema (genetic algorithms)","score":0.49989771842956543},{"id":"https://openalex.org/keywords/semantic-integration","display_name":"Semantic integration","score":0.4831508994102478},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.46863818168640137},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4520074427127838},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.39257490634918213},{"id":"https://openalex.org/keywords/semantic-web","display_name":"Semantic Web","score":0.22809502482414246},{"id":"https://openalex.org/keywords/semantic-computing","display_name":"Semantic computing","score":0.10528582334518433}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8474757075309753},{"id":"https://openalex.org/C72634772","wikidata":"https://www.wikidata.org/wiki/Q386824","display_name":"Data integration","level":2,"score":0.5872943997383118},{"id":"https://openalex.org/C22550185","wikidata":"https://www.wikidata.org/wiki/Q7095047","display_name":"Ontology-based data integration","level":3,"score":0.5401228070259094},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.5149953365325928},{"id":"https://openalex.org/C52146309","wikidata":"https://www.wikidata.org/wiki/Q7431116","display_name":"Schema (genetic algorithms)","level":2,"score":0.49989771842956543},{"id":"https://openalex.org/C110903229","wikidata":"https://www.wikidata.org/wiki/Q7449064","display_name":"Semantic integration","level":4,"score":0.4831508994102478},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.46863818168640137},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4520074427127838},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.39257490634918213},{"id":"https://openalex.org/C2129575","wikidata":"https://www.wikidata.org/wiki/Q54837","display_name":"Semantic Web","level":2,"score":0.22809502482414246},{"id":"https://openalex.org/C511149849","wikidata":"https://www.wikidata.org/wiki/Q7449051","display_name":"Semantic computing","level":3,"score":0.10528582334518433},{"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}],"mesh":[{"descriptor_ui":"D066289","descriptor_name":"Data Curation","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D066289","descriptor_name":"Data Curation","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008490","descriptor_name":"Medical Informatics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012660","descriptor_name":"Semantics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1109/jbhi.2015.2464353","is_oa":false,"landing_page_url":"https://doi.org/10.1109/jbhi.2015.2464353","pdf_url":null,"source":{"id":"https://openalex.org/S2495854775","display_name":"IEEE Journal of Biomedical and Health Informatics","issn_l":"2168-2194","issn":["2168-2194","2168-2208"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Journal of Biomedical and Health Informatics","raw_type":"journal-article"},{"id":"pmid:26259204","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26259204","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":"IEEE journal of biomedical and health informatics","raw_type":null},{"id":"pmh:oai:HAL:hal-01444029v1","is_oa":false,"landing_page_url":"https://ube.hal.science/hal-01444029","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://ieeexplore.ieee.org/document/7177048/","raw_type":"Journal articles"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320327269","display_name":"Conseil r\u00e9gional de Bourgogne-Franche-Comt\u00e9","ror":"https://ror.org/04t9bwz39"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":41,"referenced_works":["https://openalex.org/W425490","https://openalex.org/W47442846","https://openalex.org/W105326295","https://openalex.org/W1591768831","https://openalex.org/W1620530708","https://openalex.org/W1734573275","https://openalex.org/W1791430325","https://openalex.org/W1870305865","https://openalex.org/W1883385133","https://openalex.org/W1969718527","https://openalex.org/W1971676632","https://openalex.org/W1992673035","https://openalex.org/W1999427920","https://openalex.org/W2014264886","https://openalex.org/W2016758618","https://openalex.org/W2018962510","https://openalex.org/W2023625054","https://openalex.org/W2035431154","https://openalex.org/W2059873765","https://openalex.org/W2067980344","https://openalex.org/W2085333314","https://openalex.org/W2098718687","https://openalex.org/W2099230441","https://openalex.org/W2111465715","https://openalex.org/W2119647569","https://openalex.org/W2126703991","https://openalex.org/W2131743814","https://openalex.org/W2134201815","https://openalex.org/W2141824507","https://openalex.org/W2142950958","https://openalex.org/W2143894868","https://openalex.org/W2153282838","https://openalex.org/W2165108943","https://openalex.org/W2166481247","https://openalex.org/W2293299776","https://openalex.org/W2398446688","https://openalex.org/W2460071091","https://openalex.org/W2912192661","https://openalex.org/W6679567809","https://openalex.org/W6681962024","https://openalex.org/W6697305431"],"related_works":["https://openalex.org/W2375662764","https://openalex.org/W2159517577","https://openalex.org/W1976716227","https://openalex.org/W2144482357","https://openalex.org/W224932175","https://openalex.org/W2360976705","https://openalex.org/W2096864132","https://openalex.org/W756990636","https://openalex.org/W2113331693","https://openalex.org/W4230386043"],"abstract_inverted_index":{"Biomedical":[0],"information":[1],"systems":[2],"(BIS)":[3],"require":[4],"consideration":[5],"of":[6,9,31,48,117,166],"three":[7],"types":[8],"variability:":[10],"data":[11,41,62,107,134,149],"variability":[12,22,35,95],"induced":[13,23],"by":[14,24,143],"new":[15,29,38],"high":[16],"throughput":[17],"technologies,":[18],"schema":[19,64],"or":[20,28],"model":[21],"large":[25],"scale":[26],"studies":[27,97],"fields":[30],"research,":[32],"and":[33,52,63,66,77,102,108,136,138,161],"knowledge":[34,120,140],"resulting":[36],"from":[37],"discoveries.":[39],"Beyond":[40],"heterogeneity,":[42],"managing":[43],"variabilities":[44,65],"in":[45,163],"the":[46,155,164],"context":[47,165],"BIS":[49],"requires":[50],"extensible":[51],"dynamic":[53,91],"integration":[54,70,92],"process.":[55],"In":[56],"this":[57],"paper,":[58],"we":[59,67],"focus":[60],"on":[61,73,114],"propose":[68],"an":[69,99,124],"framework":[71,81,157],"based":[72],"ontologies,":[74],"master":[75],"data,":[76],"semantic":[78,109],"annotations.":[79,110],"The":[80],"addresses":[82],"issues":[83],"related":[84],"to:":[85],"1)":[86],"collaborative":[87],"work":[88],"through":[89],"a":[90,144,167],"process;":[93],"2)":[94],"among":[96],"using":[98,123],"annotation":[100],"mechanism;":[101],"3)":[103],"quality":[104],"control":[105],"over":[106],"Our":[111],"approach":[112],"relies":[113],"two":[115],"levels":[116],"knowledge:":[118],"BIS-related":[119],"is":[121,141],"modeled":[122],"application":[125],"ontology":[126],"coupled":[127],"with":[128,154],"UML":[129],"models":[130],"that":[131],"allow":[132],"controlling":[133],"completeness":[135],"consistency,":[137],"domain":[139,145],"described":[142],"ontology,":[146],"which":[147],"ensures":[148],"coherence.":[150],"A":[151],"system":[152],"build":[153],"eClims":[156],"has":[158],"been":[159],"implemented":[160],"evaluated":[162],"proteomic":[168],"platform.":[169]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":4},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}