{"id":"https://openalex.org/W2890142464","doi":"https://doi.org/10.1093/bioinformatics/bty561","title":"FLYCOP: metabolic modeling-based analysis and engineering microbial communities","display_name":"FLYCOP: metabolic modeling-based analysis and engineering microbial communities","publication_year":2018,"publication_date":"2018-07-06","ids":{"openalex":"https://openalex.org/W2890142464","doi":"https://doi.org/10.1093/bioinformatics/bty561","mag":"2890142464","pmid":"https://pubmed.ncbi.nlm.nih.gov/30423096"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty561","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty561","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i954/25702431/bty561.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i954/25702431/bty561.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5034245473","display_name":"Beatriz Garc\u00eda-Jim\u00e9nez","orcid":"https://orcid.org/0000-0002-8129-6506"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"funder","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Beatriz Garc\u00eda-Jim\u00e9nez","raw_affiliation_strings":["Department of Systems Biology, Centro Nacional de Biotecnolog\u00eda, Consejo Superior de Investigaciones Cient\u00edficas (CNB-CSIC), 28049 Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Centro Nacional de Biotecnolog\u00eda, Consejo Superior de Investigaciones Cient\u00edficas (CNB-CSIC), 28049 Madrid, Spain","institution_ids":["https://openalex.org/I4210104776","https://openalex.org/I134820265"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100739784","display_name":"Jos\u00e9 L. Garc\u0131\u0301a","orcid":"https://orcid.org/0000-0002-9238-2485"},"institutions":[{"id":"https://openalex.org/I4210152685","display_name":"Institute for Integrative Systems Biology","ror":"https://ror.org/05jw4kp39","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I16097986","https://openalex.org/I4210152685"]},{"id":"https://openalex.org/I4210147680","display_name":"Centro de Investigaciones Biol\u00f3gicas Margarita Salas","ror":"https://ror.org/04advdf21","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210147680"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 Luis Garc\u00eda","raw_affiliation_strings":["Applied System Biology and Synthetic Biology Department, Institute for Integrative Systems Biology (I2Sysbio-CSIC-UV), 46980 Paterna, Spain","Microbial and Plant Biotechnology Department, Centro de Investigaciones Biol\u00f3gicas (CIB-CSIC), 28040 Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"Applied System Biology and Synthetic Biology Department, Institute for Integrative Systems Biology (I2Sysbio-CSIC-UV), 46980 Paterna, Spain","institution_ids":["https://openalex.org/I4210152685"]},{"raw_affiliation_string":"Microbial and Plant Biotechnology Department, Centro de Investigaciones Biol\u00f3gicas (CIB-CSIC), 28040 Madrid, Spain","institution_ids":["https://openalex.org/I4210147680"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5081652637","display_name":"Juan Nogales","orcid":"https://orcid.org/0000-0002-4961-0833"},"institutions":[{"id":"https://openalex.org/I134820265","display_name":"Consejo Superior de Investigaciones Cient\u00edficas","ror":"https://ror.org/02gfc7t72","country_code":"ES","type":"funder","lineage":["https://openalex.org/I134820265"]},{"id":"https://openalex.org/I4210104776","display_name":"Centro Nacional de Biotecnolog\u00eda","ror":"https://ror.org/015w4v032","country_code":"ES","type":"facility","lineage":["https://openalex.org/I134820265","https://openalex.org/I4210104776"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Juan Nogales","raw_affiliation_strings":["Department of Systems Biology, Centro Nacional de Biotecnolog\u00eda, Consejo Superior de Investigaciones Cient\u00edficas (CNB-CSIC), 28049 Madrid, Spain"],"affiliations":[{"raw_affiliation_string":"Department of Systems Biology, Centro Nacional de Biotecnolog\u00eda, Consejo Superior de Investigaciones Cient\u00edficas (CNB-CSIC), 28049 Madrid, Spain","institution_ids":["https://openalex.org/I4210104776","https://openalex.org/I134820265"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5081652637"],"corresponding_institution_ids":["https://openalex.org/I134820265","https://openalex.org/I4210104776"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":2.1419,"has_fulltext":false,"cited_by_count":65,"citation_normalized_percentile":{"value":0.8827117,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"34","issue":"17","first_page":"i954","last_page":"i963"},"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9950000047683716,"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":0.9940000176429749,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.6317975521087646},{"id":"https://openalex.org/keywords/biochemical-engineering","display_name":"Biochemical engineering","score":0.6181820631027222},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6140762567520142},{"id":"https://openalex.org/keywords/metabolic-engineering","display_name":"Metabolic engineering","score":0.5667277574539185},{"id":"https://openalex.org/keywords/pseudomonas-putida","display_name":"Pseudomonas putida","score":0.5076831579208374},{"id":"https://openalex.org/keywords/microbial-consortium","display_name":"Microbial consortium","score":0.47478315234184265},{"id":"https://openalex.org/keywords/synthetic-biology","display_name":"Synthetic biology","score":0.44325798749923706},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.41124388575553894},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.3769032955169678},{"id":"https://openalex.org/keywords/biotechnology","display_name":"Biotechnology","score":0.3609326481819153},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.352226585149765},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.228858083486557},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.16636860370635986},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.1628982424736023},{"id":"https://openalex.org/keywords/microorganism","display_name":"Microorganism","score":0.13108834624290466}],"concepts":[{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.6317975521087646},{"id":"https://openalex.org/C183696295","wikidata":"https://www.wikidata.org/wiki/Q2487696","display_name":"Biochemical engineering","level":1,"score":0.6181820631027222},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6140762567520142},{"id":"https://openalex.org/C6350086","wikidata":"https://www.wikidata.org/wiki/Q6822347","display_name":"Metabolic engineering","level":3,"score":0.5667277574539185},{"id":"https://openalex.org/C2780543182","wikidata":"https://www.wikidata.org/wiki/Q2738168","display_name":"Pseudomonas putida","level":3,"score":0.5076831579208374},{"id":"https://openalex.org/C2777306163","wikidata":"https://www.wikidata.org/wiki/Q2986869","display_name":"Microbial consortium","level":4,"score":0.47478315234184265},{"id":"https://openalex.org/C191908910","wikidata":"https://www.wikidata.org/wiki/Q862838","display_name":"Synthetic biology","level":2,"score":0.44325798749923706},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.41124388575553894},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.3769032955169678},{"id":"https://openalex.org/C150903083","wikidata":"https://www.wikidata.org/wiki/Q7108","display_name":"Biotechnology","level":1,"score":0.3609326481819153},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.352226585149765},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.228858083486557},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.16636860370635986},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.1628982424736023},{"id":"https://openalex.org/C175605896","wikidata":"https://www.wikidata.org/wiki/Q39833","display_name":"Microorganism","level":3,"score":0.13108834624290466},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C181199279","wikidata":"https://www.wikidata.org/wiki/Q8047","display_name":"Enzyme","level":2,"score":0.0},{"id":"https://openalex.org/C523546767","wikidata":"https://www.wikidata.org/wiki/Q10876","display_name":"Bacteria","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"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":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059013","descriptor_name":"Microbial Consortia","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059013","descriptor_name":"Microbial Consortia","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059013","descriptor_name":"Microbial Consortia","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060847","descriptor_name":"Metabolic Engineering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060847","descriptor_name":"Metabolic Engineering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060847","descriptor_name":"Metabolic Engineering","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064307","descriptor_name":"Microbiota","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/bty561","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty561","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i954/25702431/bty561.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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:30423096","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30423096","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:digital.csic.es:10261/192442","is_oa":true,"landing_page_url":"http://hdl.handle.net/10261/192442","pdf_url":null,"source":{"id":"https://openalex.org/S4306400616","display_name":"DIGITAL.CSIC (Spanish National Research Council (CSIC))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134820265","host_organization_name":"Consejo Superior de Investigaciones Cient\u00edficas","host_organization_lineage":["https://openalex.org/I134820265"],"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":"art\u00edculo"},{"id":"pmh:oai:europepmc.org:5083548","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6129290","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:6129290","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6129290","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/bty561","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty561","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/17/i954/25702431/bty561.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"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":0.5799999833106995,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2890142464.pdf","grobid_xml":"https://content.openalex.org/works/W2890142464.grobid-xml"},"referenced_works_count":49,"referenced_works":["https://openalex.org/W1549936434","https://openalex.org/W1591939288","https://openalex.org/W1967039865","https://openalex.org/W1967600116","https://openalex.org/W1984445372","https://openalex.org/W2021099440","https://openalex.org/W2031581341","https://openalex.org/W2044321897","https://openalex.org/W2044935306","https://openalex.org/W2048465561","https://openalex.org/W2071952329","https://openalex.org/W2080791625","https://openalex.org/W2119368614","https://openalex.org/W2122093325","https://openalex.org/W2124737787","https://openalex.org/W2139542233","https://openalex.org/W2140463038","https://openalex.org/W2147472054","https://openalex.org/W2161466984","https://openalex.org/W2170427655","https://openalex.org/W2174328995","https://openalex.org/W2207096656","https://openalex.org/W2273147197","https://openalex.org/W2319638806","https://openalex.org/W2394694036","https://openalex.org/W2397950241","https://openalex.org/W2402262832","https://openalex.org/W2462711073","https://openalex.org/W2473028773","https://openalex.org/W2501387461","https://openalex.org/W2509782679","https://openalex.org/W2516204999","https://openalex.org/W2521458537","https://openalex.org/W2551372307","https://openalex.org/W2557679158","https://openalex.org/W2581045219","https://openalex.org/W2593883258","https://openalex.org/W2595463508","https://openalex.org/W2607761459","https://openalex.org/W2612367073","https://openalex.org/W2616621860","https://openalex.org/W2617261748","https://openalex.org/W2623898396","https://openalex.org/W2733001227","https://openalex.org/W2744832284","https://openalex.org/W2765922336","https://openalex.org/W2770456970","https://openalex.org/W6670976425","https://openalex.org/W6699825847"],"related_works":["https://openalex.org/W2268969690","https://openalex.org/W2126646394","https://openalex.org/W3047447888","https://openalex.org/W2053717739","https://openalex.org/W3012829536","https://openalex.org/W4389436555","https://openalex.org/W2171219265","https://openalex.org/W2626617466","https://openalex.org/W1999457307","https://openalex.org/W2059128096"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":16},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":11},{"year":2020,"cited_by_count":9},{"year":2019,"cited_by_count":3}],"updated_date":"2026-04-03T22:45:19.894376","created_date":"2025-10-10T00:00:00"}
