{"id":"https://openalex.org/W2186090899","doi":"https://doi.org/10.2390/biecoll-jib-2015-261","title":"COMBINE Archive Specification Version 1","display_name":"COMBINE Archive Specification Version 1","publication_year":2015,"publication_date":"2015-01-01","ids":{"openalex":"https://openalex.org/W2186090899","doi":"https://doi.org/10.2390/biecoll-jib-2015-261","mag":"2186090899","pmid":"https://pubmed.ncbi.nlm.nih.gov/26528559"},"language":"en","primary_location":{"id":"pmid:26528559","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26528559","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 integrative bioinformatics","raw_type":null},"type":"article","indexed_in":["datacite","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://doi.org/10.2390/biecoll-jib-2015-261","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5076617999","display_name":"Frank Bergmann","orcid":"https://orcid.org/0000-0001-5553-4702"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Bergmann, Frank T.","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002460040","display_name":"Nicol\u00e1s Rodr\u00edguez","orcid":"https://orcid.org/0000-0002-9290-7894"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Rodriguez, Nicolas","raw_affiliation_strings":[],"affiliations":[]},{"author_position":"last","author":{"id":"https://openalex.org/A5112438594","display_name":"Nicolas Le Nov\u00e8re","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Le Novere, Nicolas","raw_affiliation_strings":[],"affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5076617999"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":3.4856,"has_fulltext":false,"cited_by_count":8,"citation_normalized_percentile":{"value":0.94117647,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"12","issue":"2","first_page":"261","last_page":"261"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9846000075340271,"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"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9846000075340271,"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"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9725000262260437,"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":0.9711999893188477,"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/computer-science","display_name":"Computer science","score":0.8380280137062073},{"id":"https://openalex.org/keywords/metadata","display_name":"Metadata","score":0.6624956130981445},{"id":"https://openalex.org/keywords/file-format","display_name":"File format","score":0.600132942199707},{"id":"https://openalex.org/keywords/serialization","display_name":"Serialization","score":0.5748167037963867},{"id":"https://openalex.org/keywords/xml","display_name":"XML","score":0.5580501556396484},{"id":"https://openalex.org/keywords/container","display_name":"Container (type theory)","score":0.5411161780357361},{"id":"https://openalex.org/keywords/data-file","display_name":"Data file","score":0.49487847089767456},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.48809918761253357},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.4793184995651245},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.4625527262687683},{"id":"https://openalex.org/keywords/computer-file","display_name":"Computer file","score":0.41817614436149597},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.3903028964996338},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.17839735746383667}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8380280137062073},{"id":"https://openalex.org/C93518851","wikidata":"https://www.wikidata.org/wiki/Q180160","display_name":"Metadata","level":2,"score":0.6624956130981445},{"id":"https://openalex.org/C97250363","wikidata":"https://www.wikidata.org/wiki/Q235557","display_name":"File format","level":2,"score":0.600132942199707},{"id":"https://openalex.org/C52723943","wikidata":"https://www.wikidata.org/wiki/Q1127410","display_name":"Serialization","level":2,"score":0.5748167037963867},{"id":"https://openalex.org/C8797682","wikidata":"https://www.wikidata.org/wiki/Q2115","display_name":"XML","level":2,"score":0.5580501556396484},{"id":"https://openalex.org/C2781018962","wikidata":"https://www.wikidata.org/wiki/Q5164884","display_name":"Container (type theory)","level":2,"score":0.5411161780357361},{"id":"https://openalex.org/C171730128","wikidata":"https://www.wikidata.org/wiki/Q5227290","display_name":"Data file","level":2,"score":0.49487847089767456},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.48809918761253357},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.4793184995651245},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.4625527262687683},{"id":"https://openalex.org/C95637964","wikidata":"https://www.wikidata.org/wiki/Q82753","display_name":"Computer file","level":2,"score":0.41817614436149597},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.3903028964996338},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.17839735746383667},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","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":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D004282","descriptor_name":"Documentation","qualifier_ui":"Q000592","qualifier_name":"standards","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":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011381","descriptor_name":"Programming Languages","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017408","descriptor_name":"Guidelines as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D017408","descriptor_name":"Guidelines as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D038622","descriptor_name":"Internationality","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false},{"descriptor_ui":"D066264","descriptor_name":"Datasets as Topic","qualifier_ui":"Q000592","qualifier_name":"standards","is_major_topic":false}],"locations_count":3,"locations":[{"id":"pmid:26528559","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26528559","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 integrative bioinformatics","raw_type":null},{"id":"pmh:oai:biecoll.ub.uni-bielefeld.de:5365","is_oa":false,"landing_page_url":"http://biecoll.ub.uni-bielefeld.de/volltexte/2015/5365/","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"http://journal.imbio.de","raw_type":"Journal Article"},{"id":"doi:10.2390/biecoll-jib-2015-261","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2015-261","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article-journal"}],"best_oa_location":{"id":"doi:10.2390/biecoll-jib-2015-261","is_oa":true,"landing_page_url":"https://doi.org/10.2390/biecoll-jib-2015-261","pdf_url":null,"source":{"id":"https://openalex.org/S4306401670","display_name":"PUB \u2013 Publications at Bielefeld University (Bielefeld University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I20121455","host_organization_name":"Bielefeld University","host_organization_lineage":["https://openalex.org/I20121455"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"article-journal"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":2,"referenced_works":["https://openalex.org/W1653446932","https://openalex.org/W2914997451"],"related_works":["https://openalex.org/W2146043838","https://openalex.org/W4244579304","https://openalex.org/W121990861","https://openalex.org/W2789764919","https://openalex.org/W68197364","https://openalex.org/W332431639","https://openalex.org/W2350925032","https://openalex.org/W2328169369","https://openalex.org/W2264510621","https://openalex.org/W2555009243"],"abstract_inverted_index":{"Several":[0],"standard":[1,128],"formats":[2,129],"have":[3],"been":[4],"proposed":[5],"that":[6,65],"can":[7,111],"be":[8,112],"used":[9],"to":[10,29],"describe":[11],"models,":[12],"simulations,":[13],"data":[14],"or":[15],"other":[16,127],"essential":[17],"information":[18,48,101,190,197],"in":[19,56,90,134,156,183,191,205],"a":[20,31,51,62,67,149],"consistent":[21],"fashion.":[22],"These":[23],"constitute":[24],"various":[25],"separate":[26],"components":[27],"required":[28],"reproduce":[30],"given":[32],"published":[33],"scientific":[34],"result.":[35],"The":[36,80,96,146,172],"Open":[37],"Modeling":[38,133],"EXchange":[39],"format":[40,110],"(OMEX)":[41],"supports":[42],"the":[43,47,75,78,91,103,120,126,131,140,143,176,188,196],"exchange":[44],"of":[45,119,142,148,153,178],"all":[46,87,187,195],"necessary":[49],"for":[50],"modeling":[52,179],"and":[53,74,93,105,180,199,209],"simulation":[54,181],"experiment":[55],"biology.":[57],"An":[58],"OMEX":[59,138],"file":[60,85,98],"is":[61,82,139],"ZIP":[63],"container":[64],"includes":[66],"manifest":[68,81],"file,":[69,73],"an":[70,83,116,168],"optional":[71],"metadata":[72,97],"files":[76,88,154,165],"describing":[77],"model.":[79],"XML":[84,117],"listing":[86],"included":[89],"archive":[92,104],"their":[94],"type.":[95],"provides":[99],"additional":[100,164],"about":[102],"its":[106],"content.":[107],"Although":[108],"any":[109],"used,":[113],"we":[114],"recommend":[115],"serialization":[118],"Resource":[121],"Description":[122],"Framework.":[123],"Together":[124],"with":[125],"from":[130],"Computational":[132],"Biology":[135],"Network":[136],"(COMBINE),":[137],"basis":[141],"COMBINE":[144,150,157,173],"Archive.":[145],"content":[147],"Archive":[151,174],"consists":[152],"encoded":[155],"standards":[158],"whenever":[159],"possible,":[160],"but":[161],"may":[162],"include":[163],"defined":[166],"by":[167,185],"Internet":[169],"Media":[170],"Type.":[171],"facilitates":[175],"reproduction":[177],"experiments":[182],"biology":[184],"embedding":[186],"relevant":[189],"one":[192],"file.":[193],"Having":[194],"stored":[198],"exchanged":[200],"at":[201],"once":[202],"also":[203],"helps":[204],"building":[206],"activity":[207],"logs":[208],"audit":[210],"trails.":[211]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
