{"id":"https://openalex.org/W2111857509","doi":"https://doi.org/10.1109/cec.2008.4631172","title":"Inferring S-system models of genetic networks from a time-series real data set of gene expression profiles","display_name":"Inferring S-system models of genetic networks from a time-series real data set of gene expression profiles","publication_year":2008,"publication_date":"2008-06-01","ids":{"openalex":"https://openalex.org/W2111857509","doi":"https://doi.org/10.1109/cec.2008.4631172","mag":"2111857509"},"language":"en","primary_location":{"id":"doi:10.1109/cec.2008.4631172","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cec.2008.4631172","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 IEEE Congress on Evolutionary Computation (IEEE World Congress on Computational Intelligence)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5101839715","display_name":"Huiling Huang","orcid":"https://orcid.org/0009-0000-1115-0416"},"institutions":[{"id":"https://openalex.org/I12509574","display_name":"Jinwen University of Science and Technology","ror":"https://ror.org/03dr26375","country_code":"TW","type":"education","lineage":["https://openalex.org/I12509574"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Hui-Ling Huang","raw_affiliation_strings":["Department of InformationManagement, Jin-Wen Institute of Technology, Taipei, Taiwan","Dept. of Inf. Manage., Jin Wen Inst. of Technol., Taipei"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of InformationManagement, Jin-Wen Institute of Technology, Taipei, Taiwan","institution_ids":["https://openalex.org/I12509574"]},{"raw_affiliation_string":"Dept. of Inf. Manage., Jin Wen Inst. of Technol., Taipei","institution_ids":["https://openalex.org/I12509574"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101944515","display_name":"Kuan\u2010Wei Chen","orcid":"https://orcid.org/0000-0002-4325-8373"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Kuan-Wei Chen","raw_affiliation_strings":["Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan#TAB#","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103369171","display_name":"Shinn-Jang Ho","orcid":null},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I40689657","display_name":"National Formosa University","ror":"https://ror.org/00q523p52","country_code":"TW","type":"education","lineage":["https://openalex.org/I40689657"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Shinn-Jang Ho","raw_affiliation_strings":["Department of Automation Engineering, National Formosa University, Yunlin, Taiwan","Department of Biological Science and Technology and Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","Department of Automation Engineering, National Formosa University, Yunlin 632, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Automation Engineering, National Formosa University, Yunlin, Taiwan","institution_ids":["https://openalex.org/I40689657"]},{"raw_affiliation_string":"Department of Biological Science and Technology and Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Department of Automation Engineering, National Formosa University, Yunlin 632, Taiwan","institution_ids":["https://openalex.org/I40689657"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5070924732","display_name":"Shinn\u2010Ying Ho","orcid":"https://orcid.org/0000-0002-1901-8353"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]},{"id":"https://openalex.org/I40689657","display_name":"National Formosa University","ror":"https://ror.org/00q523p52","country_code":"TW","type":"education","lineage":["https://openalex.org/I40689657"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Shinn-Ying Ho","raw_affiliation_strings":["Department of Automation Engineering, National Formosa University, Yunlin, Taiwan","Department of Biological Science and Technology and Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","Department of Biological Science and Technology, and Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Automation Engineering, National Formosa University, Yunlin, Taiwan","institution_ids":["https://openalex.org/I40689657"]},{"raw_affiliation_string":"Department of Biological Science and Technology and Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]},{"raw_affiliation_string":"Department of Biological Science and Technology, and Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.13363813,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"13","issue":null,"first_page":"2788","last_page":"2793"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998999834060669,"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":0.9998999834060669,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9984999895095825,"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":0.9955999851226807,"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/set","display_name":"Set (abstract data type)","score":0.6883559226989746},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5985715985298157},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.5828843116760254},{"id":"https://openalex.org/keywords/data-set","display_name":"Data set","score":0.5817716717720032},{"id":"https://openalex.org/keywords/expression","display_name":"Expression (computer science)","score":0.5550040006637573},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.5304215550422668},{"id":"https://openalex.org/keywords/genetic-network","display_name":"Genetic network","score":0.5209494829177856},{"id":"https://openalex.org/keywords/series","display_name":"Series (stratigraphy)","score":0.49098971486091614},{"id":"https://openalex.org/keywords/genetic-algorithm","display_name":"Genetic algorithm","score":0.44623759388923645},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.40814176201820374},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.35964810848236084},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3372837007045746},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2839576303958893},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2839335799217224},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.22377058863639832},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15204602479934692}],"concepts":[{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.6883559226989746},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5985715985298157},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.5828843116760254},{"id":"https://openalex.org/C58489278","wikidata":"https://www.wikidata.org/wiki/Q1172284","display_name":"Data set","level":2,"score":0.5817716717720032},{"id":"https://openalex.org/C90559484","wikidata":"https://www.wikidata.org/wiki/Q778379","display_name":"Expression (computer science)","level":2,"score":0.5550040006637573},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.5304215550422668},{"id":"https://openalex.org/C2986044853","wikidata":"https://www.wikidata.org/wiki/Q1502576","display_name":"Genetic network","level":3,"score":0.5209494829177856},{"id":"https://openalex.org/C143724316","wikidata":"https://www.wikidata.org/wiki/Q312468","display_name":"Series (stratigraphy)","level":2,"score":0.49098971486091614},{"id":"https://openalex.org/C8880873","wikidata":"https://www.wikidata.org/wiki/Q187787","display_name":"Genetic algorithm","level":2,"score":0.44623759388923645},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.40814176201820374},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.35964810848236084},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3372837007045746},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2839576303958893},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2839335799217224},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.22377058863639832},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15204602479934692},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","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":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cec.2008.4631172","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cec.2008.4631172","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2008 IEEE Congress on Evolutionary Computation (IEEE World Congress on Computational Intelligence)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":29,"referenced_works":["https://openalex.org/W131637771","https://openalex.org/W617311959","https://openalex.org/W1488729186","https://openalex.org/W1502529406","https://openalex.org/W1581582023","https://openalex.org/W1631185401","https://openalex.org/W1932912927","https://openalex.org/W1970833612","https://openalex.org/W1989652873","https://openalex.org/W1996264210","https://openalex.org/W1999902057","https://openalex.org/W2003243598","https://openalex.org/W2052900991","https://openalex.org/W2091383103","https://openalex.org/W2097668519","https://openalex.org/W2129737673","https://openalex.org/W2141239733","https://openalex.org/W2149579404","https://openalex.org/W2151098983","https://openalex.org/W2162202368","https://openalex.org/W2163296727","https://openalex.org/W2165011536","https://openalex.org/W2167485812","https://openalex.org/W2171063580","https://openalex.org/W4243954743","https://openalex.org/W4249150173","https://openalex.org/W6605371517","https://openalex.org/W6636910345","https://openalex.org/W6640376310"],"related_works":["https://openalex.org/W2392243736","https://openalex.org/W86652014","https://openalex.org/W2328518092","https://openalex.org/W3101249758","https://openalex.org/W2382079200","https://openalex.org/W2374091470","https://openalex.org/W1902660783","https://openalex.org/W4388218547","https://openalex.org/W2379703849","https://openalex.org/W3129895999"],"abstract_inverted_index":{"It":[0],"is":[1,30,184,210],"desirable":[2],"to":[3,13,32,74,105,170,212],"infer":[4,106],"cellular":[5],"dynamic":[6],"regulation":[7],"networks":[8,112],"from":[9,79,113],"gene":[10,61,120,148],"expression":[11,62,121,149],"profiles":[12,63,122,150,169],"discover":[14],"more":[15],"delicate":[16],"and":[17,25,37,199],"substantial":[18],"functions":[19],"in":[20,128,194],"molecular":[21],"biology,":[22],"biochemistry,":[23],"bioengineering,":[24],"pharmaceutics.":[26],"The":[27,139,157],"S-system":[28,77,108,165],"model":[29],"suitable":[31],"characterize":[33],"biochemical":[34],"network":[35],"systems":[36],"capable":[38],"of":[39,51,56,59,85,110,119,147,179,188,196,203,214],"analyzing":[40],"the":[41,48,107,153,173,177,201],"regulatory":[42],"system":[43],"dynamics.":[44],"To":[45],"cope":[46],"with":[47,167],"problem":[49],"ldquomultiplicity":[50],"solutionsrdquo,":[52],"a":[53,80,114,190,206],"sufficient":[54],"amount":[55],"data":[57,87,117,127,145,155,182,192,208,219],"sets":[58,88,146,183],"time-series":[60,115],"were":[64],"often":[65],"used.":[66],"An":[67],"efficient":[68],"newly-developed":[69],"method":[70,99],"iTEA":[71,104,215],"was":[72],"proposed":[73],"effectively":[75],"obtain":[76,164],"models":[78,109,166],"large":[81],"number":[82],"(e.g.,":[83],"15)":[84],"simulated":[86],"with/without":[89],"noise.":[90],"In":[91],"this":[92],"study,":[93],"we":[94],"propose":[95],"an":[96,137],"extended":[97],"optimization":[98],"(named":[100],"iTEAP)":[101],"based":[102],"on":[103],"genetic":[111],"real":[116,218],"set":[118,193,209],"(using":[123],"SOS":[124],"DNA":[125],"microarray":[126],"<i":[129,133],"xmlns:mml=\"http://www.w3.org/1998/Math/MathML\"":[130,134],"xmlns:xlink=\"http://www.w3.org/1999/xlink\">E</i>":[131],".":[132],"xmlns:xlink=\"http://www.w3.org/1999/xlink\">coli</i>":[135],"as":[136],"example).":[138],"algorithm":[140],"iTEAP":[141,162,204],"generated":[142],"additionally":[143],"multiple":[144,181],"by":[151],"perturbing":[152],"given":[154],"set.":[156],"results":[158],"reveal":[159],"that":[160,187,213],"1)":[161],"can":[163],"high-quality":[168],"best":[171],"fit":[172],"observed":[174],"profiles;":[175],"2)":[176],"performance":[178],"using":[180,189,205,216],"better":[185],"than":[186],"single":[191,207],"terms":[195],"solution":[197],"quality,":[198],"3)":[200],"effectiveness":[202],"close":[211],"two":[217],"sets.":[220]},"counts_by_year":[{"year":2016,"cited_by_count":1},{"year":2012,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}