{"id":"https://openalex.org/W2566109047","doi":"https://doi.org/10.1109/cibcb.2016.7758101","title":"Computational intelligence for metabolic pathway design: Application to the pentose phosphate pathway","display_name":"Computational intelligence for metabolic pathway design: Application to the pentose phosphate pathway","publication_year":2016,"publication_date":"2016-10-01","ids":{"openalex":"https://openalex.org/W2566109047","doi":"https://doi.org/10.1109/cibcb.2016.7758101","mag":"2566109047"},"language":"en","primary_location":{"id":"doi:10.1109/cibcb.2016.7758101","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2016.7758101","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2016 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","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/A5073240590","display_name":"James Skelton","orcid":"https://orcid.org/0000-0001-7358-8616"},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"D. J. Skelton","raw_affiliation_strings":["School of Computing Science, Newcastle University, Newcastle upon Tyne, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing Science, Newcastle University, Newcastle upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040063046","display_name":"Jennifer Hallinan","orcid":"https://orcid.org/0000-0002-2860-1022"},"institutions":[{"id":"https://openalex.org/I99043593","display_name":"Macquarie University","ror":"https://ror.org/01sf06y89","country_code":"AU","type":"education","lineage":["https://openalex.org/I99043593"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"J. S. Hallinan","raw_affiliation_strings":["Department of Biological Sciences, Macquarie University, Sydney, Australia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Macquarie University, Sydney, Australia","institution_ids":["https://openalex.org/I99043593"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106660181","display_name":"S. Park","orcid":null},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"S. Park","raw_affiliation_strings":["School of Computing Science, Newcastle University, Newcastle upon Tyne, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing Science, Newcastle University, Newcastle upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089978830","display_name":"Anil Wipat","orcid":"https://orcid.org/0000-0001-7310-4191"},"institutions":[{"id":"https://openalex.org/I84884186","display_name":"Newcastle University","ror":"https://ror.org/01kj2bm70","country_code":"GB","type":"education","lineage":["https://openalex.org/I84884186"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"A. Wipat","raw_affiliation_strings":["School of Computing Science, Newcastle University, Newcastle upon Tyne, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computing Science, Newcastle University, Newcastle upon Tyne, UK","institution_ids":["https://openalex.org/I84884186"]}]}],"institutions":[],"countries_distinct_count":2,"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":1,"citation_normalized_percentile":{"value":0.1032232,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":null,"issue":null,"first_page":"1","last_page":"6"},"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":0.9976999759674072,"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":0.9926999807357788,"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/pentose-phosphate-pathway","display_name":"Pentose phosphate pathway","score":0.8194000720977783},{"id":"https://openalex.org/keywords/metabolic-engineering","display_name":"Metabolic engineering","score":0.6747802495956421},{"id":"https://openalex.org/keywords/metabolic-pathway","display_name":"Metabolic pathway","score":0.64858478307724},{"id":"https://openalex.org/keywords/flux-balance-analysis","display_name":"Flux balance analysis","score":0.6444858312606812},{"id":"https://openalex.org/keywords/synthetic-biology","display_name":"Synthetic biology","score":0.6109615564346313},{"id":"https://openalex.org/keywords/flux","display_name":"Flux (metallurgy)","score":0.6067940592765808},{"id":"https://openalex.org/keywords/bacillus-subtilis","display_name":"Bacillus subtilis","score":0.5813167691230774},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.5665661692619324},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.49458548426628113},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.46244722604751587},{"id":"https://openalex.org/keywords/biochemical-engineering","display_name":"Biochemical engineering","score":0.4600863456726074},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.413648784160614},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3545668423175812},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.34150078892707825},{"id":"https://openalex.org/keywords/enzyme","display_name":"Enzyme","score":0.3363730311393738},{"id":"https://openalex.org/keywords/bacteria","display_name":"Bacteria","score":0.21562355756759644},{"id":"https://openalex.org/keywords/glycolysis","display_name":"Glycolysis","score":0.20070895552635193},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13750669360160828},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.11715945601463318}],"concepts":[{"id":"https://openalex.org/C3409486","wikidata":"https://www.wikidata.org/wiki/Q827489","display_name":"Pentose phosphate pathway","level":4,"score":0.8194000720977783},{"id":"https://openalex.org/C6350086","wikidata":"https://www.wikidata.org/wiki/Q6822347","display_name":"Metabolic engineering","level":3,"score":0.6747802495956421},{"id":"https://openalex.org/C192989942","wikidata":"https://www.wikidata.org/wiki/Q68685","display_name":"Metabolic pathway","level":3,"score":0.64858478307724},{"id":"https://openalex.org/C167091322","wikidata":"https://www.wikidata.org/wiki/Q5463029","display_name":"Flux balance analysis","level":2,"score":0.6444858312606812},{"id":"https://openalex.org/C191908910","wikidata":"https://www.wikidata.org/wiki/Q862838","display_name":"Synthetic biology","level":2,"score":0.6109615564346313},{"id":"https://openalex.org/C68709404","wikidata":"https://www.wikidata.org/wiki/Q1134475","display_name":"Flux (metallurgy)","level":2,"score":0.6067940592765808},{"id":"https://openalex.org/C2777272437","wikidata":"https://www.wikidata.org/wiki/Q131238","display_name":"Bacillus subtilis","level":3,"score":0.5813167691230774},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.5665661692619324},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.49458548426628113},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.46244722604751587},{"id":"https://openalex.org/C183696295","wikidata":"https://www.wikidata.org/wiki/Q2487696","display_name":"Biochemical engineering","level":1,"score":0.4600863456726074},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.413648784160614},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3545668423175812},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.34150078892707825},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.3363730311393738},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.21562355756759644},{"id":"https://openalex.org/C20251656","wikidata":"https://www.wikidata.org/wiki/Q162643","display_name":"Glycolysis","level":3,"score":0.20070895552635193},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13750669360160828},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.11715945601463318},{"id":"https://openalex.org/C178790620","wikidata":"https://www.wikidata.org/wiki/Q11351","display_name":"Organic chemistry","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/cibcb.2016.7758101","is_oa":false,"landing_page_url":"https://doi.org/10.1109/cibcb.2016.7758101","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2016 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"score":0.5799999833106995,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G8981079481","display_name":null,"funder_award_id":"EP/K039083/1","funder_id":"https://openalex.org/F4320334627","funder_display_name":"Engineering and Physical Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320334627","display_name":"Engineering and Physical Sciences Research Council","ror":"https://ror.org/0439y7842"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":36,"referenced_works":["https://openalex.org/W164388668","https://openalex.org/W331740334","https://openalex.org/W965551521","https://openalex.org/W1514764400","https://openalex.org/W1541501294","https://openalex.org/W1758794665","https://openalex.org/W1772749380","https://openalex.org/W1994348237","https://openalex.org/W2001088234","https://openalex.org/W2001517705","https://openalex.org/W2004637416","https://openalex.org/W2038972460","https://openalex.org/W2048465561","https://openalex.org/W2050423447","https://openalex.org/W2059128096","https://openalex.org/W2076262841","https://openalex.org/W2078355959","https://openalex.org/W2091834373","https://openalex.org/W2097571405","https://openalex.org/W2100818174","https://openalex.org/W2100882223","https://openalex.org/W2109582636","https://openalex.org/W2114034054","https://openalex.org/W2129200157","https://openalex.org/W2150908245","https://openalex.org/W2151350595","https://openalex.org/W2159482845","https://openalex.org/W2164997719","https://openalex.org/W2167945159","https://openalex.org/W2169360734","https://openalex.org/W2173547959","https://openalex.org/W2411275788","https://openalex.org/W2801034590","https://openalex.org/W4254238185","https://openalex.org/W6637787379","https://openalex.org/W7074251037"],"related_works":["https://openalex.org/W2126646394","https://openalex.org/W3047447888","https://openalex.org/W2053717739","https://openalex.org/W2626617466","https://openalex.org/W1999457307","https://openalex.org/W1992844569","https://openalex.org/W2613838074","https://openalex.org/W3130044579","https://openalex.org/W2242337664","https://openalex.org/W3110470499"],"abstract_inverted_index":{"Metabolic":[0],"engineering":[1],"is":[2],"increasingly":[3],"being":[4],"used":[5],"for":[6],"the":[7,25,39,47,65,80,87,90,107,117],"production":[8],"of":[9,27,41,49,62,79,89,113],"industrial":[10],"products":[11],"such":[12],"as":[13],"pharmaceuticals":[14],"and":[15,38,76],"enzymes.":[16],"These":[17],"chemicals":[18],"have":[19],"traditionally":[20],"been":[21],"chemically":[22],"synthesized,":[23],"but":[24],"application":[26],"synthetic":[28,50],"biology":[29],"techniques":[30],"to":[31,57,101,106,116],"microbes":[32],"facilitates":[33],"faster,":[34],"cheaper":[35],"production.":[36],"Modelling":[37],"integration":[40],"existing":[42],"data":[43,99],"can":[44],"help":[45],"inform":[46],"design":[48],"pathways.":[51],"We":[52],"applied":[53],"an":[54],"evolutionary":[55],"algorithm":[56,85],"a":[58],"flux":[59,91],"balance":[60,92],"model":[61],"metabolism":[63],"in":[64],"industrially":[66],"important":[67],"bacterium":[68],"Bacillus":[69],"subtilis.":[70],"Our":[71],"target":[72],"metabolites":[73],"are":[74],"sedoheptulose-7-phosphate":[75],"riboflavin,":[77],"components":[78],"pentose":[81],"phosphate":[82],"pathway.":[83,118],"The":[84],"combines":[86],"results":[88],"analysis":[93],"with":[94],"phylogenetic":[95],"information":[96],"derived":[97],"from":[98],"warehouses,":[100],"predict":[102],"several":[103],"potential":[104],"interventions":[105],"metabolic":[108],"network,":[109],"mostly":[110],"involving":[111],"knockouts":[112],"genes":[114],"related":[115]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
