{"id":"https://openalex.org/W2558715734","doi":"https://doi.org/10.1109/cec.2016.7744333","title":"Optimization of artificial operon construction by consultation algorithms utilizing LCS","display_name":"Optimization of artificial operon construction by consultation algorithms utilizing LCS","publication_year":2016,"publication_date":"2016-07-01","ids":{"openalex":"https://openalex.org/W2558715734","doi":"https://doi.org/10.1109/cec.2016.7744333","mag":"2558715734"},"language":"en","primary_location":{"id":"doi:10.1109/cec.2016.7744333","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cec.2016.7744333","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2016 IEEE Congress on Evolutionary Computation (CEC)","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/A5101827982","display_name":"Changhee Han","orcid":"https://orcid.org/0000-0002-4429-3859"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Changhee Han","raw_affiliation_strings":["Graduate School of Information Science and Technology, University of Tokyo, Bunkyo, Tokyo, Japan"],"affiliations":[{"raw_affiliation_string":"Graduate School of Information Science and Technology, University of Tokyo, Bunkyo, Tokyo, Japan","institution_ids":["https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059918114","display_name":"Kenji Tsuge","orcid":"https://orcid.org/0000-0002-2905-5932"},"institutions":[{"id":"https://openalex.org/I203951103","display_name":"Keio University","ror":"https://ror.org/02kn6nx58","country_code":"JP","type":"education","lineage":["https://openalex.org/I203951103"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Kenji Tsuge","raw_affiliation_strings":["Institute for Advanced Bioscicnces, Keio University, Tsuruoka, Yamagata, Japan"],"affiliations":[{"raw_affiliation_string":"Institute for Advanced Bioscicnces, Keio University, Tsuruoka, Yamagata, Japan","institution_ids":["https://openalex.org/I203951103"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5005925953","display_name":"Hitoshi Iba","orcid":"https://orcid.org/0000-0001-7815-0306"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Hitoshi Iba","raw_affiliation_strings":["Graduate School of Information Science and Technology, University of Tokyo, Bunkyo, Tokyo, Japan"],"affiliations":[{"raw_affiliation_string":"Graduate School of Information Science and Technology, University of Tokyo, Bunkyo, Tokyo, Japan","institution_ids":["https://openalex.org/I74801974"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5101827982"],"corresponding_institution_ids":["https://openalex.org/I74801974"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.16885175,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"69","issue":null,"first_page":"4273","last_page":"4280"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11801","display_name":"Reservoir Engineering and Simulation Methods","score":0.9509000182151794,"subfield":{"id":"https://openalex.org/subfields/2212","display_name":"Ocean Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11801","display_name":"Reservoir Engineering and Simulation Methods","score":0.9509000182151794,"subfield":{"id":"https://openalex.org/subfields/2212","display_name":"Ocean Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10491","display_name":"Enhanced Oil Recovery Techniques","score":0.929099977016449,"subfield":{"id":"https://openalex.org/subfields/2212","display_name":"Ocean Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5874892473220825},{"id":"https://openalex.org/keywords/operon","display_name":"Operon","score":0.5760478377342224},{"id":"https://openalex.org/keywords/optimization-algorithm","display_name":"Optimization algorithm","score":0.4522063434123993},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4067579507827759},{"id":"https://openalex.org/keywords/mathematical-optimization","display_name":"Mathematical optimization","score":0.1913958191871643},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.14968204498291016},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.0989149808883667},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.07439503073692322},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07268083095550537}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5874892473220825},{"id":"https://openalex.org/C203075996","wikidata":"https://www.wikidata.org/wiki/Q139677","display_name":"Operon","level":4,"score":0.5760478377342224},{"id":"https://openalex.org/C2987595161","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Optimization algorithm","level":2,"score":0.4522063434123993},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4067579507827759},{"id":"https://openalex.org/C126255220","wikidata":"https://www.wikidata.org/wiki/Q141495","display_name":"Mathematical optimization","level":1,"score":0.1913958191871643},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.14968204498291016},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0989149808883667},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.07439503073692322},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07268083095550537},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cec.2016.7744333","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cec.2016.7744333","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2016 IEEE Congress on Evolutionary Computation (CEC)","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":44,"referenced_works":["https://openalex.org/W190638014","https://openalex.org/W1494268857","https://openalex.org/W1499618754","https://openalex.org/W1507061142","https://openalex.org/W1585023907","https://openalex.org/W1659842140","https://openalex.org/W1966745866","https://openalex.org/W1976257434","https://openalex.org/W1985921653","https://openalex.org/W2001307435","https://openalex.org/W2005336557","https://openalex.org/W2008819752","https://openalex.org/W2009537768","https://openalex.org/W2031471721","https://openalex.org/W2034717680","https://openalex.org/W2037395808","https://openalex.org/W2042352676","https://openalex.org/W2044464933","https://openalex.org/W2045761815","https://openalex.org/W2052852933","https://openalex.org/W2066614304","https://openalex.org/W2073318101","https://openalex.org/W2098327518","https://openalex.org/W2124838370","https://openalex.org/W2125055259","https://openalex.org/W2126855067","https://openalex.org/W2129560785","https://openalex.org/W2132207273","https://openalex.org/W2137983211","https://openalex.org/W2142305616","https://openalex.org/W2142766538","https://openalex.org/W2144588155","https://openalex.org/W2146299618","https://openalex.org/W2147001555","https://openalex.org/W2155560009","https://openalex.org/W2157507882","https://openalex.org/W2172162088","https://openalex.org/W2213907473","https://openalex.org/W2895774836","https://openalex.org/W2911964244","https://openalex.org/W3146803896","https://openalex.org/W4249172267","https://openalex.org/W6678449394","https://openalex.org/W6681554426"],"related_works":["https://openalex.org/W4366549320","https://openalex.org/W4287863136","https://openalex.org/W3006015132","https://openalex.org/W2965078190","https://openalex.org/W2140656843","https://openalex.org/W3040644038","https://openalex.org/W4394870774","https://openalex.org/W4311207076","https://openalex.org/W3203633096","https://openalex.org/W2355226480"],"abstract_inverted_index":{"How":[0,153],"can":[1,154,198],"we":[2,40,92,155],"boost":[3],"Escherichia":[4],"coli":[5,158,178,206,212],"(E.":[6],"coli)":[7],"growth":[8,106,116,138,159,183,207,216],"(i.e.,":[9],"production)":[10],"without":[11,60],"modifying":[12],"genes":[13,57],"themselves?":[14],"This":[15],"remains":[16,58],"a":[17,72,80,89],"challenging":[18],"and":[19,31,105,108,132,208],"fruitful":[20],"goal":[21],"that":[22,193,202],"would":[23],"facilitate":[24],"the":[25,64,100,148,181,186],"mass":[26],"production":[27],"of":[28,66,185],"biofuels,":[29],"biomedicine,":[30],"engineered":[32],"genomes":[33],"in":[34,127,140],"synthetic":[35],"biology.":[36],"In":[37],"this":[38],"paper,":[39],"focus":[41],"on":[42],"rear-ranging":[43],"gene":[44,51,67,77,85,103,112,125,134,162,200],"order":[45,104],"within":[46],"an":[47],"operon":[48,74,82,220],"to":[49,98,123,143,161],"optimize":[50],"expression.":[52],"Optimizing":[53],"more":[54],"than":[55],"five":[56],"laborious":[59],"predictive":[61],"modeling":[62],"as":[63],"number":[65],"orders":[68,113,126,135,201],"increases":[69],"factorially":[70],"-":[71],"five-gene":[73],"possesses":[75,83],"120":[76],"orders,":[78],"but":[79],"ten-gene":[81,90],"3,628,800":[84],"orders.":[86],"To":[87],"handle":[88],"operon,":[91],"propose":[93],"consultation":[94,194],"algorithms":[95,131,195],"utilizing":[96,196],"LCS":[97,197],"analyze":[99],"relationship":[101],"between":[102],"rate,":[107],"then":[109],"verify":[110],"predicted":[111],"with":[114,136,214],"high":[115,137,215],"rates":[117,139,217],"using":[118,218],"wet-lab":[119],"experiments.":[120],"\u201cConsultation\u201d":[121],"refers":[122],"optimizing":[124],"different":[128],"machine":[129],"learning":[130],"choosing":[133],"each":[141],"algorithm":[142],"avoid":[144],"over-fitting.":[145],"We":[146],"address":[147],"following":[149],"research":[150],"questions:":[151],"(RQ1)":[152],"predict":[156],"E.":[157,177,205,211],"according":[160],"orders?":[163],"(RQ2)":[164],"Can":[165,175],"definite":[166],"rules":[167],"easily":[168],"understood":[169],"by":[170],"biologists":[171],"be":[172],"extracted?":[173],"(RQ3)":[174],"new":[176],"strains":[179,213],"surpass":[180],"highest":[182],"rate":[184],"dataset?":[187],"Our":[188],"first":[189],"computational":[190],"approach":[191],"shows":[192],"identify":[199],"significantly":[203],"control":[204],"create":[209],"novel":[210],"these":[219],"construction":[221],"rules.":[222]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
