{"id":"https://openalex.org/W1987607959","doi":"https://doi.org/10.1371/journal.pcbi.1000744","title":"OptForce: An Optimization Procedure for Identifying All Genetic Manipulations Leading to Targeted Overproductions","display_name":"OptForce: An Optimization Procedure for Identifying All Genetic Manipulations Leading to Targeted Overproductions","publication_year":2010,"publication_date":"2010-04-15","ids":{"openalex":"https://openalex.org/W1987607959","doi":"https://doi.org/10.1371/journal.pcbi.1000744","mag":"1987607959","pmid":"https://pubmed.ncbi.nlm.nih.gov/20419153"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1000744","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000744","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000744&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000744&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5086397210","display_name":"Sridhar Ranganathan","orcid":"https://orcid.org/0000-0003-0535-7634"},"institutions":[{"id":"https://openalex.org/I130769515","display_name":"Pennsylvania State University","ror":"https://ror.org/04p491231","country_code":"US","type":"education","lineage":["https://openalex.org/I130769515"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sridhar Ranganathan","raw_affiliation_strings":["Huck Institutes of Life Sciences, The Pennsylvania State University, University Park, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Huck Institutes of Life Sciences, The Pennsylvania State University, University Park, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I130769515"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068368439","display_name":"Patrick F. Suthers","orcid":"https://orcid.org/0000-0002-5560-9986"},"institutions":[{"id":"https://openalex.org/I130769515","display_name":"Pennsylvania State University","ror":"https://ror.org/04p491231","country_code":"US","type":"education","lineage":["https://openalex.org/I130769515"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Patrick F. Suthers","raw_affiliation_strings":["Department of Chemical Engineering, The Pennsylvania State University, University Park, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemical Engineering, The Pennsylvania State University, University Park, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I130769515"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083581014","display_name":"Costas D. Maranas","orcid":"https://orcid.org/0000-0002-1508-1398"},"institutions":[{"id":"https://openalex.org/I130769515","display_name":"Pennsylvania State University","ror":"https://ror.org/04p491231","country_code":"US","type":"education","lineage":["https://openalex.org/I130769515"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Costas D. Maranas","raw_affiliation_strings":["Department of Chemical Engineering, The Pennsylvania State University, University Park, Pennsylvania, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Chemical Engineering, The Pennsylvania State University, University Park, Pennsylvania, United States of America","institution_ids":["https://openalex.org/I130769515"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5083581014"],"corresponding_institution_ids":["https://openalex.org/I130769515"],"apc_list":{"value":3043,"currency":"USD","value_usd":3043},"apc_paid":{"value":3043,"currency":"USD","value_usd":3043},"fwci":10.9647,"has_fulltext":true,"cited_by_count":439,"citation_normalized_percentile":{"value":0.99084409,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"6","issue":"4","first_page":"e1000744","last_page":"e1000744"},"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/T11663","display_name":"Viral Infectious Diseases and Gene Expression in Insects","score":0.9939000010490417,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9932000041007996,"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/overproduction","display_name":"Overproduction","score":0.9465787410736084},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.7593731880187988},{"id":"https://openalex.org/keywords/metabolic-engineering","display_name":"Metabolic engineering","score":0.7463221549987793},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.65669846534729},{"id":"https://openalex.org/keywords/flux","display_name":"Flux (metallurgy)","score":0.584206759929657},{"id":"https://openalex.org/keywords/production","display_name":"Production (economics)","score":0.5695608854293823},{"id":"https://openalex.org/keywords/biochemical-engineering","display_name":"Biochemical engineering","score":0.5543667674064636},{"id":"https://openalex.org/keywords/flux-balance-analysis","display_name":"Flux balance analysis","score":0.528795063495636},{"id":"https://openalex.org/keywords/escherichia-coli","display_name":"Escherichia coli","score":0.5189297199249268},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5078511834144592},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.4875938296318054},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46556639671325684},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.4395943880081177},{"id":"https://openalex.org/keywords/metabolic-flux-analysis","display_name":"Metabolic flux analysis","score":0.41601285338401794},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.4116251468658447},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.38436365127563477},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.24615249037742615},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.2412312924861908},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.20083245635032654},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.17263981699943542},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.12226799130439758},{"id":"https://openalex.org/keywords/metabolism","display_name":"Metabolism","score":0.11749044060707092},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.08301883935928345}],"concepts":[{"id":"https://openalex.org/C124420848","wikidata":"https://www.wikidata.org/wiki/Q333076","display_name":"Overproduction","level":3,"score":0.9465787410736084},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.7593731880187988},{"id":"https://openalex.org/C6350086","wikidata":"https://www.wikidata.org/wiki/Q6822347","display_name":"Metabolic engineering","level":3,"score":0.7463221549987793},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.65669846534729},{"id":"https://openalex.org/C68709404","wikidata":"https://www.wikidata.org/wiki/Q1134475","display_name":"Flux (metallurgy)","level":2,"score":0.584206759929657},{"id":"https://openalex.org/C2778348673","wikidata":"https://www.wikidata.org/wiki/Q739302","display_name":"Production (economics)","level":2,"score":0.5695608854293823},{"id":"https://openalex.org/C183696295","wikidata":"https://www.wikidata.org/wiki/Q2487696","display_name":"Biochemical engineering","level":1,"score":0.5543667674064636},{"id":"https://openalex.org/C167091322","wikidata":"https://www.wikidata.org/wiki/Q5463029","display_name":"Flux balance analysis","level":2,"score":0.528795063495636},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.5189297199249268},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5078511834144592},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.4875938296318054},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46556639671325684},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.4395943880081177},{"id":"https://openalex.org/C160941953","wikidata":"https://www.wikidata.org/wiki/Q6822342","display_name":"Metabolic flux analysis","level":3,"score":0.41601285338401794},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.4116251468658447},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.38436365127563477},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.24615249037742615},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2412312924861908},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.20083245635032654},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.17263981699943542},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.12226799130439758},{"id":"https://openalex.org/C62231903","wikidata":"https://www.wikidata.org/wiki/Q1057","display_name":"Metabolism","level":2,"score":0.11749044060707092},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.08301883935928345},{"id":"https://openalex.org/C139719470","wikidata":"https://www.wikidata.org/wiki/Q39680","display_name":"Macroeconomics","level":1,"score":0.0},{"id":"https://openalex.org/C162324750","wikidata":"https://www.wikidata.org/wiki/Q8134","display_name":"Economics","level":0,"score":0.0},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","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":"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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005786","descriptor_name":"Gene Expression Regulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D005818","descriptor_name":"Genetic Engineering","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008957","descriptor_name":"Models, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015233","descriptor_name":"Models, Statistical","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019802","descriptor_name":"Succinic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019802","descriptor_name":"Succinic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D019802","descriptor_name":"Succinic Acid","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1371/journal.pcbi.1000744","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000744","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000744&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},{"id":"pmid:20419153","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20419153","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":"PLoS computational biology","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2855329","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2855329","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":"PLoS Comput Biol","raw_type":"Text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.664.3041","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.664.3041","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://maranas.che.psu.edu/pub/2010/Ranganathan_et_al%2C_PLoS_Comp._Biol.%2C2010.pdf","raw_type":"text"},{"id":"pmh:oai:doaj.org/article:e203e2d03ca145f3b4860a50a2abcc4b","is_oa":false,"landing_page_url":"https://doaj.org/article/e203e2d03ca145f3b4860a50a2abcc4b","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 6, Iss 4, p e1000744 (2010)","raw_type":"article"},{"id":"pmh:oai:figshare.com:article/143843","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/OptForce_An_Optimization_Procedure_for_Identifying_All_Genetic_Manipulations_Leading_to_Targeted_Overproductions/143843","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1000744","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1000744","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1000744&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLoS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4099999964237213,"id":"https://metadata.un.org/sdg/12","display_name":"Responsible consumption and production"}],"awards":[{"id":"https://openalex.org/G1779663734","display_name":"DEVELOPMENT OF COMPUTATIONAL TOOLS FOR METABOLIC MODELS CURATION, FLUX, ELUCIDATION & STRAIN DESIGN","funder_award_id":"DEFG0205ER25684","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G222768804","display_name":null,"funder_award_id":"DE\u2010FG02\u2010","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G2597931350","display_name":"DEVELOPMENT OF COMPUTATIONAL TOOLS FOR ANALYZING AND REDESIGNING METABOLIC NETWORKS","funder_award_id":"FG02-05ER25684","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1987607959.pdf","grobid_xml":"https://content.openalex.org/works/W1987607959.grobid-xml"},"referenced_works_count":73,"referenced_works":["https://openalex.org/W1482637285","https://openalex.org/W1535241806","https://openalex.org/W1574470162","https://openalex.org/W1621540022","https://openalex.org/W1642162696","https://openalex.org/W1793938508","https://openalex.org/W1921304878","https://openalex.org/W1966580332","https://openalex.org/W1969983517","https://openalex.org/W1974117482","https://openalex.org/W1978852492","https://openalex.org/W1982258483","https://openalex.org/W1983700015","https://openalex.org/W1984096521","https://openalex.org/W1992306474","https://openalex.org/W2004964623","https://openalex.org/W2007467553","https://openalex.org/W2013685063","https://openalex.org/W2016538166","https://openalex.org/W2020241931","https://openalex.org/W2029453308","https://openalex.org/W2029913262","https://openalex.org/W2032030424","https://openalex.org/W2033646322","https://openalex.org/W2034961255","https://openalex.org/W2037718952","https://openalex.org/W2040149695","https://openalex.org/W2040891094","https://openalex.org/W2049829444","https://openalex.org/W2050930719","https://openalex.org/W2054506883","https://openalex.org/W2056305771","https://openalex.org/W2062819025","https://openalex.org/W2067057812","https://openalex.org/W2068897213","https://openalex.org/W2069527467","https://openalex.org/W2072156052","https://openalex.org/W2075690392","https://openalex.org/W2076262841","https://openalex.org/W2079266069","https://openalex.org/W2083693802","https://openalex.org/W2100818174","https://openalex.org/W2101752169","https://openalex.org/W2102164505","https://openalex.org/W2105007526","https://openalex.org/W2106576546","https://openalex.org/W2108590631","https://openalex.org/W2110384600","https://openalex.org/W2112285562","https://openalex.org/W2112685196","https://openalex.org/W2121990877","https://openalex.org/W2127869220","https://openalex.org/W2128746754","https://openalex.org/W2129022886","https://openalex.org/W2129899370","https://openalex.org/W2130364940","https://openalex.org/W2131690075","https://openalex.org/W2132832829","https://openalex.org/W2133112961","https://openalex.org/W2142750990","https://openalex.org/W2148750928","https://openalex.org/W2154767435","https://openalex.org/W2154797402","https://openalex.org/W2158354870","https://openalex.org/W2168244801","https://openalex.org/W2170427655","https://openalex.org/W2171092495","https://openalex.org/W2172575434","https://openalex.org/W2339493109","https://openalex.org/W4251297898","https://openalex.org/W4254285210","https://openalex.org/W4255087327","https://openalex.org/W6703695517"],"related_works":["https://openalex.org/W2046546139","https://openalex.org/W1992844569","https://openalex.org/W1999460937","https://openalex.org/W2113329733","https://openalex.org/W1918238777","https://openalex.org/W4285237197","https://openalex.org/W2133150343","https://openalex.org/W2341681417","https://openalex.org/W1984242440","https://openalex.org/W2613838074"],"abstract_inverted_index":{"Computational":[0],"procedures":[1],"for":[2,45,96,170],"predicting":[3],"metabolic":[4,33,68],"interventions":[5,62],"leading":[6],"to":[7,82,84,105,122,151],"the":[8,46,54,67,106,157,162,177,211],"overproduction":[9,88,126,163],"of":[10,40,101,108,114,138,214],"biochemicals":[11],"in":[12,17,66,156,173,180],"microbial":[13],"strains":[14],"are":[15,159],"widely":[16],"use.":[18],"However,":[19],"these":[20],"methods":[21],"rely":[22],"on":[23,207],"surrogate":[24],"biological":[25],"objectives":[26],"(e.g.,":[27],"maximize":[28],"growth":[29],"rate":[30],"or":[31,79],"minimize":[32],"adjustments)":[34],"and":[35,111],"do":[36],"not":[37,188],"make":[38],"use":[39],"flux":[41,74],"measurements":[42],"often":[43],"available":[44],"wild-type":[47],"strain.":[48],"In":[49],"this":[50,93,130],"work,":[51],"we":[52,132],"introduce":[53],"OptForce":[55,168],"procedure":[56],"that":[57,116,140,153,199],"identifies":[58],"all":[59,154],"possible":[60],"engineering":[61,192],"by":[63,203],"classifying":[64],"reactions":[65],"model":[69],"depending":[70],"upon":[71],"whether":[72],"their":[73],"values":[75],"must":[76,117,141],"increase,":[77],"decrease":[78],"become":[80],"equal":[81],"zero":[83],"meet":[85,123],"a":[86,109,124,135],"pre-specified":[87,125],"target.":[89,127],"We":[90,165],"hierarchically":[91],"apply":[92],"classification":[94],"rule":[95],"pairs,":[97],"triples,":[98],"quadruples,":[99],"etc.":[100],"reactions.":[102],"This":[103],"leads":[104],"identification":[107],"sufficient":[110],"non-redundant":[112],"set":[113,131,137],"fluxes":[115,139,155],"change":[118],"(i.e.,":[119,148],"MUST":[120],"set)":[121,150],"Starting":[128],"with":[129,161],"subsequently":[133],"extract":[134],"minimal":[136],"actively":[142],"be":[143],"forced":[144],"through":[145],"genetic":[146],"manipulations":[147],"FORCE":[149],"ensure":[152],"network":[158],"consistent":[160],"objective.":[164],"demonstrate":[166],"our":[167],"framework":[169],"succinate":[171,201,215],"production":[172,202],"Escherichia":[174],"coli":[175,183],"using":[176],"most":[178],"recent":[179],"silico":[181],"E.":[182],"model,":[184],"iAF1260.":[185],"The":[186],"method":[187],"only":[189],"recapitulates":[190],"existing":[191],"strategies":[193],"but":[194],"also":[195],"reveals":[196],"non-intuitive":[197],"ones":[198],"boost":[200],"performing":[204],"coordinated":[205],"changes":[206],"pathways":[208],"distant":[209],"from":[210],"last":[212],"steps":[213],"synthesis.":[216]},"counts_by_year":[{"year":2026,"cited_by_count":11},{"year":2025,"cited_by_count":22},{"year":2024,"cited_by_count":34},{"year":2023,"cited_by_count":28},{"year":2022,"cited_by_count":27},{"year":2021,"cited_by_count":22},{"year":2020,"cited_by_count":22},{"year":2019,"cited_by_count":37},{"year":2018,"cited_by_count":23},{"year":2017,"cited_by_count":36},{"year":2016,"cited_by_count":34},{"year":2015,"cited_by_count":33},{"year":2014,"cited_by_count":22},{"year":2013,"cited_by_count":34},{"year":2012,"cited_by_count":31}],"updated_date":"2026-08-26T07:47:46.906454","created_date":"2025-10-10T00:00:00"}
