{"id":"https://openalex.org/W2019839722","doi":"https://doi.org/10.1145/2576768.2598218","title":"Enhancing genetic algorithm-based genome-scale metabolic network curation efficiency","display_name":"Enhancing genetic algorithm-based genome-scale metabolic network curation efficiency","publication_year":2014,"publication_date":"2014-07-11","ids":{"openalex":"https://openalex.org/W2019839722","doi":"https://doi.org/10.1145/2576768.2598218","mag":"2019839722"},"language":"en","primary_location":{"id":"doi:10.1145/2576768.2598218","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2576768.2598218","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2014 Annual Conference on Genetic and Evolutionary Computation","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/A5026325073","display_name":"Eddy J. Bautista","orcid":"https://orcid.org/0000-0001-9202-7793"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Eddy J. Bautista","raw_affiliation_strings":["University of Connecticut, Storrs, CT, USA","University of Connecticut, Storrs, CT USA#TAB#"],"affiliations":[{"raw_affiliation_string":"University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]},{"raw_affiliation_string":"University of Connecticut, Storrs, CT USA#TAB#","institution_ids":["https://openalex.org/I140172145"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031675415","display_name":"Ranjan Srivastava","orcid":"https://orcid.org/0000-0003-4309-605X"},"institutions":[{"id":"https://openalex.org/I140172145","display_name":"University of Connecticut","ror":"https://ror.org/02der9h97","country_code":"US","type":"education","lineage":["https://openalex.org/I140172145"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ranjan Srivastava","raw_affiliation_strings":["University of Connecticut, Storrs, CT, USA","University of Connecticut, Storrs, CT USA#TAB#"],"affiliations":[{"raw_affiliation_string":"University of Connecticut, Storrs, CT, USA","institution_ids":["https://openalex.org/I140172145"]},{"raw_affiliation_string":"University of Connecticut, Storrs, CT USA#TAB#","institution_ids":["https://openalex.org/I140172145"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5026325073"],"corresponding_institution_ids":["https://openalex.org/I140172145"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.07291697,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"257","last_page":"264"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":1.0,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":1.0,"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/T10171","display_name":"Biofuel production and bioconversion","score":0.9987999796867371,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical 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/T10404","display_name":"Enzyme Catalysis and Immobilization","score":0.9957000017166138,"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/inference","display_name":"Inference","score":0.7177159190177917},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7123579978942871},{"id":"https://openalex.org/keywords/flux-balance-analysis","display_name":"Flux balance analysis","score":0.679781436920166},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.6549481749534607},{"id":"https://openalex.org/keywords/constraint","display_name":"Constraint (computer-aided design)","score":0.5386163592338562},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5112166404724121},{"id":"https://openalex.org/keywords/reduction","display_name":"Reduction (mathematics)","score":0.4888972342014313},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4864959120750427},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4236270785331726},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.41960614919662476},{"id":"https://openalex.org/keywords/false-positive-paradox","display_name":"False positive paradox","score":0.4162142276763916},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3582272231578827},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.32421284914016724},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.26149922609329224},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2414661943912506},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.16563209891319275},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1636194884777069},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.11778578162193298}],"concepts":[{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.7177159190177917},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7123579978942871},{"id":"https://openalex.org/C167091322","wikidata":"https://www.wikidata.org/wiki/Q5463029","display_name":"Flux balance analysis","level":2,"score":0.679781436920166},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.6549481749534607},{"id":"https://openalex.org/C2776036281","wikidata":"https://www.wikidata.org/wiki/Q48769818","display_name":"Constraint (computer-aided design)","level":2,"score":0.5386163592338562},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5112166404724121},{"id":"https://openalex.org/C111335779","wikidata":"https://www.wikidata.org/wiki/Q3454686","display_name":"Reduction (mathematics)","level":2,"score":0.4888972342014313},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4864959120750427},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4236270785331726},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.41960614919662476},{"id":"https://openalex.org/C64869954","wikidata":"https://www.wikidata.org/wiki/Q1859747","display_name":"False positive paradox","level":2,"score":0.4162142276763916},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3582272231578827},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.32421284914016724},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.26149922609329224},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2414661943912506},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.16563209891319275},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1636194884777069},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.11778578162193298},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2576768.2598218","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2576768.2598218","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 2014 Annual Conference on Genetic and Evolutionary Computation","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":14,"referenced_works":["https://openalex.org/W53888856","https://openalex.org/W583659471","https://openalex.org/W1485153163","https://openalex.org/W1549469339","https://openalex.org/W1584051316","https://openalex.org/W1973449924","https://openalex.org/W1990378348","https://openalex.org/W2034869276","https://openalex.org/W2063490043","https://openalex.org/W2068696225","https://openalex.org/W2079531107","https://openalex.org/W2161575197","https://openalex.org/W2167171118","https://openalex.org/W2491142891"],"related_works":["https://openalex.org/W1999460937","https://openalex.org/W2083413061","https://openalex.org/W1984242440","https://openalex.org/W2341681417","https://openalex.org/W2113329733","https://openalex.org/W3033588432","https://openalex.org/W2020641517","https://openalex.org/W2075919068","https://openalex.org/W2216418212","https://openalex.org/W2540651481"],"abstract_inverted_index":{"Genome-scale":[0],"metabolic":[1,13,47,100,162],"modeling":[2,9],"using":[3],"constraint-based":[4],"analysis":[5],"is":[6,49],"a":[7,32,115,179],"powerful":[8],"paradigm":[10],"for":[11,63],"simulating":[12],"networks.":[14],"Models":[15,76],"are":[16,77,151],"generated":[17],"via":[18],"inference":[19],"from":[20],"genome":[21],"annotations.":[22],"However,":[23],"errors":[24],"in":[25,108,127,182],"the":[26,29,44,85,97,104,122,132,158,183,193],"annotation":[27],"or":[28],"identity":[30],"of":[31,46,68,87,99,121,135,160,164,170,185],"gene's":[33],"function":[34],"could":[35],"lead":[36],"to":[37,52,95,131,137,145,157],"\"metabolic":[38],"inconsistency\"":[39],"rendering":[40],"simulations":[41],"infeasible.":[42],"Uncovering":[43],"source":[45],"inconsistency":[48],"non-trivial":[50],"due":[51,144],"network":[53],"size":[54],"and":[55,173],"complexity.":[56],"Recently":[57],"published":[58],"work":[59],"uses":[60],"genetic":[61],"algorithms":[62],"curation":[64,194],"by":[65],"generating":[66],"pools":[67],"models":[69],"with":[70],"randomly":[71],"relaxed":[72,123,186],"mass":[73,124,187],"balance":[74,125,188],"constraints.":[75],"evolved":[78],"that":[79],"allow":[80],"feasible":[81],"simulation":[82],"while":[83],"minimizing":[84],"number":[86,184],"constraints":[88,91,126,150],"relaxed.":[89],"Relaxed":[90],"represent":[92],"metabolites":[93],"likely":[94],"be":[96],"root":[98],"inconsistency.":[101],"Although":[102],"effective,":[103],"approach":[105,154],"can":[106],"result":[107,177],"numerous":[109],"false":[110],"positives.":[111],"Here":[112],"we":[113],"present":[114],"strategy,":[116],"MassChecker,":[117],"which":[118],"evaluates":[119],"all":[120],"each":[128],"generation":[129],"prior":[130],"next":[133],"round":[134],"evolution":[136],"determine":[138],"if":[139],"they":[140],"had":[141],"become":[142],"consistent":[143],"recombination/mutation.":[146],"If":[147],"so,":[148],"these":[149],"enforced.":[152],"This":[153],"was":[155,178],"applied":[156],"development":[159],"genome-scale":[161],"model":[163,168],"B.":[165],"anthracis.":[166],"The":[167,176],"consisted":[169],"1,049":[171],"reactions":[172],"1,003":[174],"metabolites.":[175],"60%":[180],"reduction":[181],"constraints,":[189],"significantly":[190],"speeding":[191],"up":[192],"process.":[195]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}