{"id":"https://openalex.org/W2106759111","doi":"https://doi.org/10.1093/bioinformatics/bti137","title":"ISYMOD: a knowledge warehouse for the identification, assembly and analysis of bacterial integrated systems","display_name":"ISYMOD: a knowledge warehouse for the identification, assembly and analysis of bacterial integrated systems","publication_year":2004,"publication_date":"2004-11-05","ids":{"openalex":"https://openalex.org/W2106759111","doi":"https://doi.org/10.1093/bioinformatics/bti137","mag":"2106759111","pmid":"https://pubmed.ncbi.nlm.nih.gov/15531617"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bti137","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bti137","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","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/A5032966322","display_name":"Julie Chabalier","orcid":null},"institutions":[{"id":"https://openalex.org/I4210115196","display_name":"Laboratoire d\u2019Informatique Fondamentale de Marseille","ror":"https://ror.org/022my8t07","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I21491767","https://openalex.org/I4210115196","https://openalex.org/I4210142724","https://openalex.org/I4210159245"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Julie Chabalier","raw_affiliation_strings":["Laboratoire d'Informatique Fondamentale de Marseille, 39 rue Joliot Curie 13453 Marseille cedex 13, France. julie.chabalier@ibsm.cnrs-mrs.fr","Laboratoire d'Informatique Fondamentale de Marseille 39 rue Joliot Curie 13453 Marseille cedex 13, France#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire d'Informatique Fondamentale de Marseille, 39 rue Joliot Curie 13453 Marseille cedex 13, France. julie.chabalier@ibsm.cnrs-mrs.fr","institution_ids":["https://openalex.org/I4210115196"]},{"raw_affiliation_string":"Laboratoire d'Informatique Fondamentale de Marseille 39 rue Joliot Curie 13453 Marseille cedex 13, France#TAB#","institution_ids":["https://openalex.org/I4210115196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003793755","display_name":"C\u00e9cile Capponi","orcid":"https://orcid.org/0000-0002-4057-774X"},"institutions":[{"id":"https://openalex.org/I4210115196","display_name":"Laboratoire d\u2019Informatique Fondamentale de Marseille","ror":"https://ror.org/022my8t07","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I21491767","https://openalex.org/I4210115196","https://openalex.org/I4210142724","https://openalex.org/I4210159245"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"C\u00e9cile Capponi","raw_affiliation_strings":["Laboratoire d'Informatique Fondamentale de Marseille 39 rue Joliot Curie 13453 Marseille cedex 13, France#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire d'Informatique Fondamentale de Marseille 39 rue Joliot Curie 13453 Marseille cedex 13, France#TAB#","institution_ids":["https://openalex.org/I4210115196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009532351","display_name":"Yves Quentin","orcid":"https://orcid.org/0000-0001-8248-0586"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Yves Quentin","raw_affiliation_strings":["Laboratoire de Chimie Bact\u00e9rienne, CNRS 31 Chemin Joseph Aiguier, 13402 Marseille cedex 20, France#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire de Chimie Bact\u00e9rienne, CNRS 31 Chemin Joseph Aiguier, 13402 Marseille cedex 20, France#TAB#","institution_ids":["https://openalex.org/I1294671590"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5052670756","display_name":"Gwenna\u00eble Fichant","orcid":"https://orcid.org/0000-0001-5480-0239"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I134560555","display_name":"Universit\u00e9 Toulouse III - Paul Sabatier","ror":"https://ror.org/02v6kpv12","country_code":"FR","type":"education","lineage":["https://openalex.org/I134560555"]},{"id":"https://openalex.org/I4210149702","display_name":"Laboratoire de Microbiologie et G\u00e9n\u00e9tique Mol\u00e9culaires","ror":"https://ror.org/04rrj3a80","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210096427","https://openalex.org/I4210149702","https://openalex.org/I4405258862"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Gwennaele Fichant","raw_affiliation_strings":["Laboratoire de Microbiologie et G\u00e9n\u00e9tique Mol\u00e9culaires, UMR 5100 CNRS-Universit\u00e9 Paul Sabatier, Toulouse Cedex, France"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratoire de Microbiologie et G\u00e9n\u00e9tique Mol\u00e9culaires, UMR 5100 CNRS-Universit\u00e9 Paul Sabatier, Toulouse Cedex, France","institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I134560555","https://openalex.org/I4210149702"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5032966322"],"corresponding_institution_ids":["https://openalex.org/I4210115196"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":null,"fwci":0.3424,"has_fulltext":false,"cited_by_count":5,"citation_normalized_percentile":{"value":0.57047019,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"21","issue":"7","first_page":"1246","last_page":"1256"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.10649999976158142,"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":0.10649999976158142,"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":0.10109999775886536,"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":0.09989999979734421,"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/warehouse","display_name":"Warehouse","score":0.8008164763450623},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.7957260012626648},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6026319265365601},{"id":"https://openalex.org/keywords/data-warehouse","display_name":"Data warehouse","score":0.4241974353790283},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3662760257720947},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3520320951938629},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.32369884848594666},{"id":"https://openalex.org/keywords/business","display_name":"Business","score":0.21987444162368774},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.08246338367462158},{"id":"https://openalex.org/keywords/marketing","display_name":"Marketing","score":0.07592597603797913}],"concepts":[{"id":"https://openalex.org/C50416739","wikidata":"https://www.wikidata.org/wiki/Q181623","display_name":"Warehouse","level":2,"score":0.8008164763450623},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.7957260012626648},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6026319265365601},{"id":"https://openalex.org/C135572916","wikidata":"https://www.wikidata.org/wiki/Q193351","display_name":"Data warehouse","level":2,"score":0.4241974353790283},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3662760257720947},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3520320951938629},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.32369884848594666},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.21987444162368774},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.08246338367462158},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.07592597603797913},{"id":"https://openalex.org/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003628","descriptor_name":"Database Management Systems","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","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":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D015964","descriptor_name":"Gene Expression Regulation, Bacterial","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018511","descriptor_name":"Systems Integration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D018528","descriptor_name":"ATP-Binding Cassette Transporters","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018528","descriptor_name":"ATP-Binding Cassette Transporters","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018528","descriptor_name":"ATP-Binding Cassette Transporters","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D018528","descriptor_name":"ATP-Binding Cassette Transporters","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018528","descriptor_name":"ATP-Binding Cassette Transporters","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D018528","descriptor_name":"ATP-Binding Cassette Transporters","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020411","descriptor_name":"Oligonucleotide Array Sequence Analysis","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020869","descriptor_name":"Gene Expression Profiling","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/bti137","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bti137","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:15531617","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15531617","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":"Bioinformatics (Oxford, England)","raw_type":"Evaluation Study"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.907.3740","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.907.3740","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/content/early/2004/11/05/bioinformatics.bti137.full.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.99.2779","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.99.2779","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/cgi/reprint/bti137v1.pdf","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320322892","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W1491126711","https://openalex.org/W1527927437","https://openalex.org/W1543120839","https://openalex.org/W1549958659","https://openalex.org/W1579357376","https://openalex.org/W1587397381","https://openalex.org/W1968066840","https://openalex.org/W1981871034","https://openalex.org/W1988344065","https://openalex.org/W1994021560","https://openalex.org/W1997394341","https://openalex.org/W2000822281","https://openalex.org/W2006700952","https://openalex.org/W2017220776","https://openalex.org/W2023735239","https://openalex.org/W2037575546","https://openalex.org/W2051815856","https://openalex.org/W2090436685","https://openalex.org/W2105277740","https://openalex.org/W2107523227","https://openalex.org/W2107779380","https://openalex.org/W2108141139","https://openalex.org/W2131998156","https://openalex.org/W2136563879","https://openalex.org/W2142193549","https://openalex.org/W2147018428","https://openalex.org/W2154944074","https://openalex.org/W2156205105","https://openalex.org/W2158784643","https://openalex.org/W2159620702","https://openalex.org/W2164101095","https://openalex.org/W2401635485","https://openalex.org/W3132589198","https://openalex.org/W4231551535"],"related_works":["https://openalex.org/W3135624046","https://openalex.org/W2392996360","https://openalex.org/W2373884155","https://openalex.org/W4200307027","https://openalex.org/W2531755459","https://openalex.org/W4388421435","https://openalex.org/W6138692","https://openalex.org/W598244552","https://openalex.org/W2389559488","https://openalex.org/W2382329217"],"abstract_inverted_index":{"MOTIVATION:":[0],"Complex":[1],"biological":[2],"functions":[3],"emerge":[4],"from":[5],"interactions":[6],"between":[7],"proteins":[8],"in":[9,54,110,129,255],"stable":[10],"supra-molecular":[11],"assemblies":[12,25],"and/or":[13],"through":[14,145],"transitory":[15],"contacts.":[16],"Most":[17],"of":[18,23,28,41,47,76,105,113,148,159,196,205,213,258,272],"the":[19,24,39,45,73,101,111,114,130,133,136,146,157,160,163,184,197,203,206,214,230,239,270,273],"time":[20],"protein":[21],"partners":[22,169],"are":[26,60,81,173],"composed":[27],"one":[29],"or":[30],"several":[31],"domains":[32],"which":[33,182],"exhibit":[34],"different":[35,48],"biochemical":[36],"functions.":[37],"Thus":[38],"study":[40,243],"cellular":[42],"process":[43],"requires":[44],"identification":[46],"functional":[49,166,192],"units":[50],"and":[51,86,103,135,170,175,190,232,249],"their":[52,140,165,168],"integration":[53],"an":[55,220],"interaction":[56],"network;":[57],"such":[58,88],"complexes":[59],"referred":[61],"to":[62,68,83,100,156,188,216,228,262,268],"as":[63],"integrated":[64,107,193,245],"systems.":[65,89,194],"In":[66,241],"order":[67],"exploit":[69],"with":[70,117],"optimum":[71],"efficiency":[72],"increased":[74],"release":[75],"data,":[77],"automated":[78],"bioinformatics":[79],"strategies":[80],"needed":[82],"identify,":[84],"reconstruct":[85,191],"model":[87],"For":[90],"that":[91,126],"purpose,":[92],"we":[93],"have":[94,265],"developed":[95],"a":[96,123,150,177,259],"knowledge":[97,124,152,161,179,222],"warehouse":[98,125],"dedicated":[99],"representation":[102,223],"acquisition":[104],"bacterial":[106,115,260],"systems":[108],"involved":[109,254],"exchange":[112],"cell":[116,261],"its":[118,233,263],"environment.":[119],"RESULTS:":[120],"ISYMOD":[121],"is":[122,143,199],"consistently":[127],"integrates":[128],"same":[131],"environment":[132],"data":[134],"methods":[137],"used":[138,187,227,267],"for":[139,237],"acquisition.":[141],"This":[142],"achieved":[144],"construction":[147],"(1)":[149],"domain":[151],"base":[153,180],"(DKB)":[154],"devoted":[155],"storage":[158],"about":[162],"systems,":[164,246,252],"specificities,":[167],"how":[171],"they":[172],"related":[174],"(2)":[176],"methodological":[178],"(MKB)":[181],"depicts":[183],"task":[185,234],"layout":[186],"identify":[189],"Instantiation":[195],"DKB":[198,215],"obtained":[200],"by":[201],"solving":[202],"tasks":[204,210],"MKB,":[207],"whereas":[208],"some":[209],"need":[211],"instances":[212],"be":[217],"solved.":[218],"AROM,":[219],"object-based":[221],"system,":[224],"has":[225],"been":[226,266],"design":[229],"DKB,":[231],"manager,":[235],"AROMTasks,":[236],"developing":[238],"MKB.":[240],"this":[242],"two":[244,250],"ABC":[247],"transporters":[248],"component":[251],"both":[253],"adaptation":[256],"processes":[257],"biotope,":[264],"evaluate":[269],"feasibility":[271],"approach.":[274]},"counts_by_year":[{"year":2013,"cited_by_count":1}],"updated_date":"2026-08-26T07:47:46.906454","created_date":"2025-10-10T00:00:00"}
