{"id":"https://openalex.org/W4409087160","doi":"https://doi.org/10.1093/bioinformatics/btaf140","title":"Seed2LP: seed inference in metabolic networks for reverse ecology applications","display_name":"Seed2LP: seed inference in metabolic networks for reverse ecology applications","publication_year":2025,"publication_date":"2025-03-29","ids":{"openalex":"https://openalex.org/W4409087160","doi":"https://doi.org/10.1093/bioinformatics/btaf140","pmid":"https://pubmed.ncbi.nlm.nih.gov/40163742"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaf140","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf140","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/41/4/btaf140/62822172/btaf140.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/41/4/btaf140/62822172/btaf140.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5012548311","display_name":"Chabname Ghassemi Nedjad","orcid":"https://orcid.org/0000-0001-7856-1180"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210142254","display_name":"Laboratoire Bordelais de Recherche en Informatique","ror":"https://ror.org/03adqg323","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210159245","https://openalex.org/I4210160189"]},{"id":"https://openalex.org/I4210160189","display_name":"Institut Polytechnique de Bordeaux","ror":"https://ror.org/054qv7y42","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210160189"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Chabname Ghassemi Nedjad","raw_affiliation_strings":["Inria, University of Bordeaux, INRAE , Talence F-33400,","University of Bordeaux, CNRS, BordeauxINP, LaBRI, UMR 5800 , Talence F-33400,","Inria, Univ. Bordeaux, INRAE , Talence, F-33400,","University of Bordeaux, CNRS, BordeauxINP, LaBRI, UMR 5800 , Talence, F-33400,"],"affiliations":[{"raw_affiliation_string":"Inria, University of Bordeaux, INRAE , Talence F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"University of Bordeaux, CNRS, BordeauxINP, LaBRI, UMR 5800 , Talence F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I1294671590","https://openalex.org/I4210142254"]},{"raw_affiliation_string":"Inria, Univ. Bordeaux, INRAE , Talence, F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"University of Bordeaux, CNRS, BordeauxINP, LaBRI, UMR 5800 , Talence, F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210160189","https://openalex.org/I1294671590","https://openalex.org/I4210142254"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085959511","display_name":"Mathieu Bolteau","orcid":"https://orcid.org/0000-0002-9261-5269"},"institutions":[{"id":"https://openalex.org/I100445878","display_name":"\u00c9cole Centrale de Nantes","ror":"https://ror.org/03nh7d505","country_code":"FR","type":"education","lineage":["https://openalex.org/I100445878","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]},{"id":"https://openalex.org/I4210117005","display_name":"Laboratoire des Sciences du Num\u00e9rique de Nantes","ror":"https://ror.org/02snf8m58","country_code":"FR","type":"facility","lineage":["https://openalex.org/I100445878","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I4210117005","https://openalex.org/I4210124215","https://openalex.org/I4210127572","https://openalex.org/I4210139971","https://openalex.org/I97188460","https://openalex.org/I97188460"]},{"id":"https://openalex.org/I97188460","display_name":"Nantes Universit\u00e9","ror":"https://ror.org/03gnr7b55","country_code":"FR","type":"education","lineage":["https://openalex.org/I97188460"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Mathieu Bolteau","raw_affiliation_strings":["Inria, University of Bordeaux, INRAE , Talence F-33400,","Nantes Universit\u00e9, Ecole Centrale Nantes, CNRS, LS2N, UMR 6004 , Nantes F-44000,","Inria, Univ. Bordeaux, INRAE , Talence, F-33400,","Nantes Universit\u00e9, Ecole Centrale Nantes, CNRS, LS2N, UMR 6004 , Nantes, F-44000,"],"affiliations":[{"raw_affiliation_string":"Inria, University of Bordeaux, INRAE , Talence F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"Nantes Universit\u00e9, Ecole Centrale Nantes, CNRS, LS2N, UMR 6004 , Nantes F-44000,","institution_ids":["https://openalex.org/I100445878","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Inria, Univ. Bordeaux, INRAE , Talence, F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"Nantes Universit\u00e9, Ecole Centrale Nantes, CNRS, LS2N, UMR 6004 , Nantes, F-44000,","institution_ids":["https://openalex.org/I97188460","https://openalex.org/I100445878","https://openalex.org/I4210117005","https://openalex.org/I1294671590"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5107624036","display_name":"Lucas Bourneuf","orcid":null},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I161929037","display_name":"Universit\u00e9 de Bretagne Occidentale","ror":"https://ror.org/01b8h3982","country_code":"FR","type":"education","lineage":["https://openalex.org/I161929037"]},{"id":"https://openalex.org/I2802519937","display_name":"Institut de Recherche en Informatique et Syst\u00e8mes Al\u00e9atoires","ror":"https://ror.org/00myn0z94","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I205703379","https://openalex.org/I2802204017","https://openalex.org/I2802519937","https://openalex.org/I28221208","https://openalex.org/I4210127572","https://openalex.org/I4210159245","https://openalex.org/I56067802"]},{"id":"https://openalex.org/I56067802","display_name":"Universit\u00e9 de Rennes","ror":"https://ror.org/015m7wh34","country_code":"FR","type":"education","lineage":["https://openalex.org/I56067802"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Lucas Bourneuf","raw_affiliation_strings":["CHRU Brest, Universit\u00e9 de Bretagne Occidentale , Brest F-29000,","Inria, Universit\u00e9 de Rennes, CNRS, IRISA, UMR 6074 , Rennes F-35000,","Univ Rennes, Inria, CNRS, IRISA, UMR 6074 , Rennes, F-35000,","CHRU Brest, Univ. Bretagne Occidentale , Brest, F-29000,"],"affiliations":[{"raw_affiliation_string":"CHRU Brest, Universit\u00e9 de Bretagne Occidentale , Brest F-29000,","institution_ids":["https://openalex.org/I161929037"]},{"raw_affiliation_string":"Inria, Universit\u00e9 de Rennes, CNRS, IRISA, UMR 6074 , Rennes F-35000,","institution_ids":["https://openalex.org/I56067802","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"Univ Rennes, Inria, CNRS, IRISA, UMR 6074 , Rennes, F-35000,","institution_ids":["https://openalex.org/I2802519937","https://openalex.org/I56067802","https://openalex.org/I1294671590"]},{"raw_affiliation_string":"CHRU Brest, Univ. Bretagne Occidentale , Brest, F-29000,","institution_ids":["https://openalex.org/I161929037"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5067946028","display_name":"Lo\u00efc Paulev\u00e9","orcid":"https://orcid.org/0000-0002-7219-2027"},"institutions":[{"id":"https://openalex.org/I1294671590","display_name":"Centre National de la Recherche Scientifique","ror":"https://ror.org/02feahw73","country_code":"FR","type":"government","lineage":["https://openalex.org/I1294671590"]},{"id":"https://openalex.org/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I4210142254","display_name":"Laboratoire Bordelais de Recherche en Informatique","ror":"https://ror.org/03adqg323","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210142254","https://openalex.org/I4210159245","https://openalex.org/I4210160189"]},{"id":"https://openalex.org/I4210160189","display_name":"Institut Polytechnique de Bordeaux","ror":"https://ror.org/054qv7y42","country_code":"FR","type":"education","lineage":["https://openalex.org/I4210160189"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Lo\u00efc Paulev\u00e9","raw_affiliation_strings":["University of Bordeaux, CNRS, BordeauxINP, LaBRI, UMR 5800 , Talence F-33400,","University of Bordeaux, CNRS, BordeauxINP, LaBRI, UMR 5800 , Talence, F-33400,"],"affiliations":[{"raw_affiliation_string":"University of Bordeaux, CNRS, BordeauxINP, LaBRI, UMR 5800 , Talence F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I1294671590","https://openalex.org/I4210142254"]},{"raw_affiliation_string":"University of Bordeaux, CNRS, BordeauxINP, LaBRI, UMR 5800 , Talence, F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210160189","https://openalex.org/I1294671590","https://openalex.org/I4210142254"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5064242161","display_name":"Cl\u00e9mence Frioux","orcid":"https://orcid.org/0000-0003-2114-0697"},"institutions":[{"id":"https://openalex.org/I15057530","display_name":"Universit\u00e9 de Bordeaux","ror":"https://ror.org/057qpr032","country_code":"FR","type":"education","lineage":["https://openalex.org/I15057530"]},{"id":"https://openalex.org/I4210088668","display_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","ror":"https://ror.org/003vg9w96","country_code":"FR","type":"government","lineage":["https://openalex.org/I4210088668"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Cl\u00e9mence Frioux","raw_affiliation_strings":["Inria, University of Bordeaux, INRAE , Talence F-33400,","Inria, Univ. Bordeaux, INRAE , Talence, F-33400,"],"affiliations":[{"raw_affiliation_string":"Inria, University of Bordeaux, INRAE , Talence F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210088668"]},{"raw_affiliation_string":"Inria, Univ. Bordeaux, INRAE , Talence, F-33400,","institution_ids":["https://openalex.org/I15057530","https://openalex.org/I4210088668"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5012548311"],"corresponding_institution_ids":["https://openalex.org/I1294671590","https://openalex.org/I15057530","https://openalex.org/I4210088668","https://openalex.org/I4210142254","https://openalex.org/I4210160189"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.534,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.81066142,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"41","issue":"4","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":0.9994999766349792,"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":0.9994999766349792,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9904999732971191,"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":0.9890000224113464,"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":0.7625468969345093},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.7053468227386475},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6277782917022705},{"id":"https://openalex.org/keywords/flux-balance-analysis","display_name":"Flux balance analysis","score":0.5635520219802856},{"id":"https://openalex.org/keywords/relevance","display_name":"Relevance (law)","score":0.5278408527374268},{"id":"https://openalex.org/keywords/metabolic-network","display_name":"Metabolic network","score":0.516486406326294},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.4912824034690857},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.46447432041168213},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4291534423828125},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.4240912199020386},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.42224428057670593},{"id":"https://openalex.org/keywords/synthetic-biology","display_name":"Synthetic biology","score":0.41757577657699585},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.4030020833015442},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3970198333263397},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.34550219774246216},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.23718351125717163},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1184617280960083},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10796123743057251},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.0985335111618042}],"concepts":[{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.7625468969345093},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.7053468227386475},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6277782917022705},{"id":"https://openalex.org/C167091322","wikidata":"https://www.wikidata.org/wiki/Q5463029","display_name":"Flux balance analysis","level":2,"score":0.5635520219802856},{"id":"https://openalex.org/C158154518","wikidata":"https://www.wikidata.org/wiki/Q7310970","display_name":"Relevance (law)","level":2,"score":0.5278408527374268},{"id":"https://openalex.org/C101810790","wikidata":"https://www.wikidata.org/wiki/Q2263094","display_name":"Metabolic network","level":2,"score":0.516486406326294},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.4912824034690857},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.46447432041168213},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4291534423828125},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.4240912199020386},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.42224428057670593},{"id":"https://openalex.org/C191908910","wikidata":"https://www.wikidata.org/wiki/Q862838","display_name":"Synthetic biology","level":2,"score":0.41757577657699585},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.4030020833015442},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3970198333263397},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.34550219774246216},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.23718351125717163},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1184617280960083},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10796123743057251},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0985335111618042},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btaf140","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf140","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/41/4/btaf140/62822172/btaf140.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40163742","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40163742","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:HAL:hal-04713829v1","is_oa":true,"landing_page_url":"https://hal.science/hal-04713829","pdf_url":"https://hal.science/hal-04713829v1/file/btaf140.pdf","source":{"id":"https://openalex.org/S4406922466","display_name":"SPIRE - Sciences Po Institutional REpository","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2025, 41 (4), pp.btaf140. &#x27E8;10.1093/bioinformatics/btaf140&#x27E9;","raw_type":"Journal articles"},{"id":"pmh:oai:oskar-bordeaux.fr:20.500.12278/202039","is_oa":true,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4306402569","display_name":"Oskar-Bordeaux (Universite de Bordeaux)","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Article de revue"},{"id":"pmh:oai:pubmedcentral.nih.gov:12007882","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12007882","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":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaf140","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaf140","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/41/4/btaf140/62822172/btaf140.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.75,"id":"https://metadata.un.org/sdg/2","display_name":"Zero hunger"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320320883","display_name":"Agence Nationale de la Recherche","ror":"https://ror.org/00rbzpz17"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4409087160.pdf","grobid_xml":"https://content.openalex.org/works/W4409087160.grobid-xml"},"referenced_works_count":51,"referenced_works":["https://openalex.org/W1555419827","https://openalex.org/W1606891084","https://openalex.org/W1893894249","https://openalex.org/W1903478710","https://openalex.org/W1932791005","https://openalex.org/W2017065632","https://openalex.org/W2048465561","https://openalex.org/W2057389251","https://openalex.org/W2067534067","https://openalex.org/W2078355959","https://openalex.org/W2085993965","https://openalex.org/W2104063250","https://openalex.org/W2108959333","https://openalex.org/W2124096367","https://openalex.org/W2137610771","https://openalex.org/W2137875903","https://openalex.org/W2152093511","https://openalex.org/W2160479957","https://openalex.org/W2202347610","https://openalex.org/W2487920442","https://openalex.org/W2522250770","https://openalex.org/W2604817739","https://openalex.org/W2652002008","https://openalex.org/W2747315198","https://openalex.org/W2751527227","https://openalex.org/W2809336338","https://openalex.org/W2891858395","https://openalex.org/W2900329956","https://openalex.org/W2932736878","https://openalex.org/W2949624116","https://openalex.org/W2952015518","https://openalex.org/W2953278221","https://openalex.org/W2963234253","https://openalex.org/W2964771029","https://openalex.org/W2987028578","https://openalex.org/W3040203840","https://openalex.org/W3093512139","https://openalex.org/W3095957450","https://openalex.org/W3101586743","https://openalex.org/W3104596207","https://openalex.org/W3117470460","https://openalex.org/W3129727011","https://openalex.org/W3179903228","https://openalex.org/W3200428960","https://openalex.org/W4247393540","https://openalex.org/W4283016910","https://openalex.org/W4294001681","https://openalex.org/W4385898399","https://openalex.org/W4403826617","https://openalex.org/W6779757272","https://openalex.org/W6850703054"],"related_works":["https://openalex.org/W1999460937","https://openalex.org/W2083413061","https://openalex.org/W1984242440","https://openalex.org/W2057769265","https://openalex.org/W2341681417","https://openalex.org/W3033588432","https://openalex.org/W2020641517","https://openalex.org/W2075919068","https://openalex.org/W2216418212","https://openalex.org/W2540651481"],"abstract_inverted_index":{"Seed2LP":[0],"is":[1],"available":[2],"on":[3],"https://github.com/bioasp/seed2lp.":[4]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-04-09T08:11:56.329763","created_date":"2025-10-10T00:00:00"}
