{"id":"https://openalex.org/W4294310416","doi":"https://doi.org/10.1515/jib-2022-0014","title":"Systematic assessment of template-based genome-scale metabolic models created with the BiGG Integration Tool","display_name":"Systematic assessment of template-based genome-scale metabolic models created with the BiGG Integration Tool","publication_year":2022,"publication_date":"2022-09-01","ids":{"openalex":"https://openalex.org/W4294310416","doi":"https://doi.org/10.1515/jib-2022-0014","pmid":"https://pubmed.ncbi.nlm.nih.gov/36054839"},"language":"en","primary_location":{"id":"doi:10.1515/jib-2022-0014","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2022-0014","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2022-0014/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://www.degruyter.com/document/doi/10.1515/jib-2022-0014/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5039886913","display_name":"Alexandre Oliveira","orcid":"https://orcid.org/0000-0002-2255-8983"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Alexandre Oliveira","raw_affiliation_strings":["Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal"],"affiliations":[{"raw_affiliation_string":"Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","institution_ids":["https://openalex.org/I99682543"]},{"raw_affiliation_string":"LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058280742","display_name":"Emanuel Cunha","orcid":"https://orcid.org/0000-0003-0893-0563"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Emanuel Cunha","raw_affiliation_strings":["Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal"],"affiliations":[{"raw_affiliation_string":"Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","institution_ids":["https://openalex.org/I99682543"]},{"raw_affiliation_string":"LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002285574","display_name":"Fernando Cruz","orcid":"https://orcid.org/0000-0003-2468-7364"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Fernando Cruz","raw_affiliation_strings":["Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal"],"affiliations":[{"raw_affiliation_string":"Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","institution_ids":["https://openalex.org/I99682543"]},{"raw_affiliation_string":"LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056807631","display_name":"Jo\u00e3o Capela","orcid":"https://orcid.org/0000-0002-1235-2922"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Jo\u00e3o Capela","raw_affiliation_strings":["Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal"],"affiliations":[{"raw_affiliation_string":"Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","institution_ids":["https://openalex.org/I99682543"]},{"raw_affiliation_string":"LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5051367711","display_name":"Jo\u00e3o C. Sequeira","orcid":"https://orcid.org/0000-0002-2691-9950"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Jo\u00e3o C. Sequeira","raw_affiliation_strings":["Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal"],"affiliations":[{"raw_affiliation_string":"Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","institution_ids":["https://openalex.org/I99682543"]},{"raw_affiliation_string":"LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024533474","display_name":"Marta Sampaio","orcid":"https://orcid.org/0000-0002-9713-3912"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Marta Sampaio","raw_affiliation_strings":["Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal"],"affiliations":[{"raw_affiliation_string":"Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","institution_ids":["https://openalex.org/I99682543"]},{"raw_affiliation_string":"LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5084947117","display_name":"Cl\u00e1udia Dias Sampaio","orcid":"https://orcid.org/0000-0002-4990-9608"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Cl\u00e1udia Sampaio","raw_affiliation_strings":["Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal"],"affiliations":[{"raw_affiliation_string":"Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","institution_ids":["https://openalex.org/I99682543"]},{"raw_affiliation_string":"LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044535959","display_name":"\u00d3scar Dias","orcid":"https://orcid.org/0000-0002-1765-7178"},"institutions":[{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"Oscar Dias","raw_affiliation_strings":["Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal"],"affiliations":[{"raw_affiliation_string":"Centre of Biological Engineering , University of Minho , 4710-057 Braga , Portugal","institution_ids":["https://openalex.org/I99682543"]},{"raw_affiliation_string":"LABBELS \u2013Associate Laboratory , Braga , Guimar\u00e3es , Portugal","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5044535959"],"corresponding_institution_ids":["https://openalex.org/I99682543"],"apc_list":null,"apc_paid":null,"fwci":0.0867,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.42968202,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"19","issue":"3","first_page":null,"last_page":null},"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":0.998199999332428,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9793999791145325,"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/computer-science","display_name":"Computer science","score":0.7351047396659851},{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.6612774133682251},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.6379568576812744},{"id":"https://openalex.org/keywords/selection","display_name":"Selection (genetic algorithm)","score":0.500739336013794},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4821033775806427},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.33581164479255676},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26681914925575256},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.2369987964630127},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1458994746208191},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12449789047241211},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.11229363083839417}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7351047396659851},{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.6612774133682251},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.6379568576812744},{"id":"https://openalex.org/C81917197","wikidata":"https://www.wikidata.org/wiki/Q628760","display_name":"Selection (genetic algorithm)","level":2,"score":0.500739336013794},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4821033775806427},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.33581164479255676},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26681914925575256},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.2369987964630127},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1458994746208191},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12449789047241211},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.11229363083839417}],"mesh":[{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025581","descriptor_name":"Neurofibromin 2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D025581","descriptor_name":"Neurofibromin 2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D025581","descriptor_name":"Neurofibromin 2","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1515/jib-2022-0014","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2022-0014","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2022-0014/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36054839","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36054839","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":"Journal of integrative bioinformatics","raw_type":null},{"id":"pmh:oai:repositorium.uminho.pt:1822/80239","is_oa":true,"landing_page_url":"https://hdl.handle.net/1822/80239","pdf_url":null,"source":null,"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:doaj.org/article:8be05f62131046e1b74ad322c688fe19","is_oa":true,"landing_page_url":"https://doaj.org/article/8be05f62131046e1b74ad322c688fe19","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Integrative Bioinformatics, Vol 19, Iss 3, Pp 1-18 (2022)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9521827","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9521827","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Integr Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1515/jib-2022-0014","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2022-0014","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2022-0014/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5699999928474426,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G1142505772","display_name":null,"funder_award_id":"DFA/BD/8076/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G1175517972","display_name":null,"funder_award_id":"DFA/BD/10205/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G1203399442","display_name":null,"funder_award_id":"UIDB/04469/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G1715978784","display_name":null,"funder_award_id":"SFRH/BD/147271/2019","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G4212571302","display_name":null,"funder_award_id":"SFRH/BD/144643/2019","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G7614437349","display_name":null,"funder_award_id":"UMI-NHO/BIM/2020/68","funder_id":"https://openalex.org/F4320325399","funder_display_name":"Universidade do Minho"},{"id":"https://openalex.org/G8252889537","display_name":null,"funder_award_id":"SFRH/BD/139198/2018","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"}],"funders":[{"id":"https://openalex.org/F4320325399","display_name":"Universidade do Minho","ror":null},{"id":"https://openalex.org/F4320334779","display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","ror":"https://ror.org/00snfqn58"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4294310416.pdf","grobid_xml":"https://content.openalex.org/works/W4294310416.grobid-xml"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W2025276733","https://openalex.org/W2048465561","https://openalex.org/W2066135800","https://openalex.org/W2078355959","https://openalex.org/W2085993965","https://openalex.org/W2096525273","https://openalex.org/W2140470365","https://openalex.org/W2531157849","https://openalex.org/W2559588208","https://openalex.org/W2622336025","https://openalex.org/W2749464300","https://openalex.org/W2755432955","https://openalex.org/W2795307638","https://openalex.org/W2916475656","https://openalex.org/W2949418748","https://openalex.org/W2952015518","https://openalex.org/W2965590414","https://openalex.org/W2987028578","https://openalex.org/W3014561228","https://openalex.org/W3129451883","https://openalex.org/W4205440119","https://openalex.org/W4224257212","https://openalex.org/W4282838866","https://openalex.org/W4289274885","https://openalex.org/W6675354045"],"related_works":["https://openalex.org/W2003194288","https://openalex.org/W2513589746","https://openalex.org/W2153919606","https://openalex.org/W2213189664","https://openalex.org/W2074002899","https://openalex.org/W2062254828","https://openalex.org/W4237480606","https://openalex.org/W2936968863","https://openalex.org/W4392342240","https://openalex.org/W2941821699"],"abstract_inverted_index":{"Genome-scale":[0],"metabolic":[1,129,150],"models":[2,23,51,82,135],"(GEMs)":[3],"are":[4],"essential":[5],"tools":[6],"for":[7,45,58,139,194,197],"<i>in":[8],"silico</i>":[9],"phenotype":[10],"prediction":[11],"and":[12,87,103,117,127,191],"strain":[13],"optimisation.":[14],"The":[15,71,120],"most":[16],"straightforward":[17],"GEMs":[18],"reconstruction":[19,196],"approach":[20,36],"uses":[21,50],"published":[22],"as":[24,56],"templates":[25,57],"to":[26,78,93,156,164],"generate":[27],"the":[28,59,65,80,100,153,158,161],"initial":[29],"draft,":[30],"requiring":[31],"further":[32],"curation.":[33],"Such":[34],"an":[35],"is":[37,77],"used":[38],"by":[39],"BiGG":[40,53,101],"Integration":[41],"Tool":[42],"(BIT),":[43],"available":[44],"<i>merlin</i>":[46],"users.":[47],"This":[48,131],"tool":[49,86],"from":[52],"Models":[54],"database":[55],"draft":[60,81,171,195],"models.":[61,105,199],"Moreover,":[62],"BIT":[63,138,175,185],"allows":[64],"selection":[66],"between":[67],"different":[68],"template":[69,154],"combinations.":[70],"main":[72],"objective":[73],"of":[74,97,149,160],"this":[75,85],"study":[76,132],"assess":[79],"generated":[83,136],"using":[84,125],"compare":[88],"them":[89],"BIT,":[90],"comparing":[91,169],"these":[92],"CarveMe":[94,180],"models,":[95,162,174],"both":[96],"which":[98],"use":[99],"database,":[102],"curated":[104,173],"For":[106],"this,":[107],"three":[108],"organisms":[109],"were":[110,142],"selected,":[111],"namely":[112],"<i>Streptococcus":[113],"thermophilus</i>,":[114],"<i>Xylella":[115],"fastidiosa</i>":[116],"<i>Mycobacterium":[118],"tuberculosis.</i>":[119],"models'":[121],"variability":[122],"was":[123],"assessed":[124],"reactions":[126],"genes'":[128],"functions.":[130,151],"concluded":[133],"that":[134],"with":[137,172],"each":[140,170],"organism":[141],"differentiated,":[143],"despite":[144],"sharing":[145],"a":[146,165,189],"significant":[147],"portion":[148],"Furthermore,":[152],"seems":[155],"influence":[157],"content":[159],"though":[163],"lower":[166],"extent.":[167],"When":[168],"had":[176],"better":[177],"performances":[178],"than":[179],"in":[181],"all":[182],"metrics.":[183],"Hence,":[184],"can":[186],"be":[187],"considered":[188],"fast":[190],"reliable":[192],"alternative":[193],"bacteria":[198]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2023,"cited_by_count":1}],"updated_date":"2026-03-31T07:56:22.981413","created_date":"2025-10-10T00:00:00"}
