{"id":"https://openalex.org/W2108996478","doi":"https://doi.org/10.1186/s12918-014-0113-3","title":"Multicriteria global optimization for biocircuit design","display_name":"Multicriteria global optimization for biocircuit design","publication_year":2014,"publication_date":"2014-09-23","ids":{"openalex":"https://openalex.org/W2108996478","doi":"https://doi.org/10.1186/s12918-014-0113-3","mag":"2108996478","pmid":"https://pubmed.ncbi.nlm.nih.gov/25248337"},"language":"en","primary_location":{"id":"doi:10.1186/s12918-014-0113-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0113-3","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0113-3","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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":"BMC Systems Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0113-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5069067835","display_name":"Irene Otero\u2010Muras","orcid":"https://orcid.org/0000-0003-2895-997X"},"institutions":[{"id":"https://openalex.org/I6289922","display_name":"Universidade de Vigo","ror":"https://ror.org/05rdf8595","country_code":"ES","type":"education","lineage":["https://openalex.org/I6289922"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Irene Otero-Muras","raw_affiliation_strings":["BioProcess Engineering Group, IIM-CSIC (Spanish Council for Scientific Research), Eduardo Cabello 6, Vigo, 36208, Spain","BioProcess Engineering Group, IIM-CSIC, Spanish Council for Scientific Research, Vigo, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BioProcess Engineering Group, IIM-CSIC (Spanish Council for Scientific Research), Eduardo Cabello 6, Vigo, 36208, Spain","institution_ids":[]},{"raw_affiliation_string":"BioProcess Engineering Group, IIM-CSIC, Spanish Council for Scientific Research, Vigo, Spain","institution_ids":["https://openalex.org/I6289922"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5090264675","display_name":"Julio R. Banga","orcid":"https://orcid.org/0000-0002-4245-0320"},"institutions":[{"id":"https://openalex.org/I6289922","display_name":"Universidade de Vigo","ror":"https://ror.org/05rdf8595","country_code":"ES","type":"education","lineage":["https://openalex.org/I6289922"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Julio R Banga","raw_affiliation_strings":["BioProcess Engineering Group, IIM-CSIC (Spanish Council for Scientific Research), Eduardo Cabello 6, Vigo, 36208, Spain","BioProcess Engineering Group, IIM-CSIC, Spanish Council for Scientific Research, Vigo, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"BioProcess Engineering Group, IIM-CSIC (Spanish Council for Scientific Research), Eduardo Cabello 6, Vigo, 36208, Spain","institution_ids":[]},{"raw_affiliation_string":"BioProcess Engineering Group, IIM-CSIC, Spanish Council for Scientific Research, Vigo, Spain","institution_ids":["https://openalex.org/I6289922"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5069067835"],"corresponding_institution_ids":["https://openalex.org/I6289922"],"apc_list":null,"apc_paid":null,"fwci":2.9879,"has_fulltext":true,"cited_by_count":37,"citation_normalized_percentile":{"value":0.91804573,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"8","issue":"1","first_page":"113","last_page":"113"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9828000068664551,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9828000068664551,"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/T11975","display_name":"Evolutionary Algorithms and Applications","score":0.004900000058114529,"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/T12029","display_name":"DNA and Biological Computing","score":0.0017000000225380063,"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":0.6904302835464478},{"id":"https://openalex.org/keywords/synthetic-biology","display_name":"Synthetic biology","score":0.6269400119781494},{"id":"https://openalex.org/keywords/modular-design","display_name":"Modular design","score":0.579091489315033},{"id":"https://openalex.org/keywords/multi-objective-optimization","display_name":"Multi-objective optimization","score":0.5392265915870667},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5339813232421875},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.5181487798690796},{"id":"https://openalex.org/keywords/optimal-design","display_name":"Optimal design","score":0.4864049255847931},{"id":"https://openalex.org/keywords/electronic-circuit","display_name":"Electronic circuit","score":0.4708150327205658},{"id":"https://openalex.org/keywords/a-priori-and-a-posteriori","display_name":"A priori and a posteriori","score":0.45835059881210327},{"id":"https://openalex.org/keywords/integer-programming","display_name":"Integer programming","score":0.42913055419921875},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.20525220036506653},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1948224902153015},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.10594683885574341},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.10351809859275818}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6904302835464478},{"id":"https://openalex.org/C191908910","wikidata":"https://www.wikidata.org/wiki/Q862838","display_name":"Synthetic biology","level":2,"score":0.6269400119781494},{"id":"https://openalex.org/C101468663","wikidata":"https://www.wikidata.org/wiki/Q1620158","display_name":"Modular design","level":2,"score":0.579091489315033},{"id":"https://openalex.org/C68781425","wikidata":"https://www.wikidata.org/wiki/Q2052203","display_name":"Multi-objective optimization","level":2,"score":0.5392265915870667},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5339813232421875},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.5181487798690796},{"id":"https://openalex.org/C186394612","wikidata":"https://www.wikidata.org/wiki/Q7098942","display_name":"Optimal design","level":2,"score":0.4864049255847931},{"id":"https://openalex.org/C134146338","wikidata":"https://www.wikidata.org/wiki/Q1815901","display_name":"Electronic circuit","level":2,"score":0.4708150327205658},{"id":"https://openalex.org/C75553542","wikidata":"https://www.wikidata.org/wiki/Q178161","display_name":"A priori and a posteriori","level":2,"score":0.45835059881210327},{"id":"https://openalex.org/C56086750","wikidata":"https://www.wikidata.org/wiki/Q6042592","display_name":"Integer programming","level":2,"score":0.42913055419921875},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.20525220036506653},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1948224902153015},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.10594683885574341},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.10351809859275818},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","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/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"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/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","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":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D032701","descriptor_name":"Biomimetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D032701","descriptor_name":"Biomimetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D032701","descriptor_name":"Biomimetics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053263","descriptor_name":"Gene Regulatory Networks","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058615","descriptor_name":"Synthetic Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058615","descriptor_name":"Synthetic Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058615","descriptor_name":"Synthetic Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12918-014-0113-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0113-3","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0113-3","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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":"BMC Systems Biology","raw_type":"journal-article"},{"id":"pmid:25248337","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25248337","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":"BMC systems biology","raw_type":null},{"id":"pmh:oai:digital.csic.es:10261/109519","is_oa":true,"landing_page_url":"http://hdl.handle.net/10261/109519","pdf_url":null,"source":{"id":"https://openalex.org/S4306400616","display_name":"DIGITAL.CSIC (Spanish National Research Council (CSIC))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134820265","host_organization_name":"Consejo Superior de Investigaciones Cient\u00edficas","host_organization_lineage":["https://openalex.org/I134820265"],"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":"","raw_type":"art\u00edculo"},{"id":"pmh:oai:pubmedcentral.nih.gov:4180256","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4180256","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":"BMC Syst Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12918-014-0113-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12918-014-0113-3","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/s12918-014-0113-3","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","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":"BMC Systems Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2108996478.pdf","grobid_xml":"https://content.openalex.org/works/W2108996478.grobid-xml"},"referenced_works_count":39,"referenced_works":["https://openalex.org/W97076651","https://openalex.org/W1573676079","https://openalex.org/W1595498733","https://openalex.org/W1645305843","https://openalex.org/W1964232618","https://openalex.org/W1972074342","https://openalex.org/W1973577260","https://openalex.org/W1989024943","https://openalex.org/W1990121351","https://openalex.org/W2004322850","https://openalex.org/W2008499862","https://openalex.org/W2009163705","https://openalex.org/W2010025771","https://openalex.org/W2024060531","https://openalex.org/W2028715997","https://openalex.org/W2029237398","https://openalex.org/W2035026850","https://openalex.org/W2036431561","https://openalex.org/W2040558572","https://openalex.org/W2041985017","https://openalex.org/W2047882868","https://openalex.org/W2057993765","https://openalex.org/W2091731123","https://openalex.org/W2105363557","https://openalex.org/W2112005387","https://openalex.org/W2113226210","https://openalex.org/W2122436512","https://openalex.org/W2123973944","https://openalex.org/W2134759932","https://openalex.org/W2145436499","https://openalex.org/W2147306790","https://openalex.org/W2151833886","https://openalex.org/W2154061444","https://openalex.org/W2167239001","https://openalex.org/W2325072505","https://openalex.org/W2339500526","https://openalex.org/W4212899374","https://openalex.org/W4292408555","https://openalex.org/W4292864963"],"related_works":["https://openalex.org/W3141738981","https://openalex.org/W2099102792","https://openalex.org/W4254255930","https://openalex.org/W4377564965","https://openalex.org/W2009687716","https://openalex.org/W634364059","https://openalex.org/W4388311650","https://openalex.org/W1974056099","https://openalex.org/W1702471942","https://openalex.org/W2129755766"],"abstract_inverted_index":{"BACKGROUND:":[0],"One":[1],"of":[2,15,35,38,63,81,84,88,99,113,119,138,166],"the":[3,36,61,68,76,97,117,120,135],"challenges":[4],"in":[5,19,33],"Synthetic":[6],"Biology":[7,20],"is":[8],"to":[9,25,45,122,153],"design":[10,49,62,80,92,150,158,175],"circuits":[11,18,30],"with":[12,106,127],"increasing":[13],"levels":[14,87],"complexity.":[16,139],"While":[17],"are":[21,31],"complex":[22],"and":[23,41,78,90,151,155],"subject":[24],"natural":[26],"tradeoffs,":[27],"most":[28],"synthetic":[29,161],"simple":[32],"terms":[34],"number":[37,112],"regulatory":[39],"regions,":[40],"have":[42],"been":[43],"designed":[44],"meet":[46],"a":[47,57,111,128,133,173],"single":[48],"criterion.":[50],"RESULTS:":[51],"In":[52],"this":[53],"contribution":[54],"we":[55,115],"introduce":[56],"multiobjective":[58,107],"formulation":[59],"for":[60,70,75,148,160],"biocircuits.":[64],"We":[65],"set":[66],"up":[67,132],"basis":[69],"an":[71,181],"advanced":[72],"optimization":[73,108],"tool":[74],"modular":[77],"systematic":[79],"biocircuits":[82],"capable":[83],"handling":[85],"high":[86],"complexity":[89],"multiple":[91],"criteria.":[93,186],"Our":[94],"methodology":[95,142],"combines":[96],"efficiency":[98],"global":[100],"Mixed":[101],"Integer":[102],"Nonlinear":[103],"Programming":[104],"solvers":[105],"techniques.":[109],"Through":[110],"examples":[114],"show":[116],"capability":[118],"method":[121],"generate":[123],"non":[124],"intuitive":[125],"designs":[126],"desired":[129,136],"functionality":[130],"setting":[131,176],"priori":[134],"level":[137],"CONCLUSIONS:":[140],"The":[141,164],"presented":[143],"here":[144],"can":[145],"be":[146],"used":[147],"biocircuit":[149],"also":[152],"explore":[154],"identify":[156],"different":[157,185],"principles":[159],"gene":[162],"circuits.":[163],"presence":[165],"more":[167],"than":[168],"one":[169],"competing":[170],"objective":[171],"provides":[172],"realistic":[174],"where":[177],"every":[178],"solution":[179],"represents":[180],"optimal":[182],"trade-off":[183],"between":[184]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":4},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":9},{"year":2016,"cited_by_count":9},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
