{"id":"https://openalex.org/W2136384042","doi":"https://doi.org/10.1093/bioinformatics/btv036","title":"Context-specific metabolic network reconstruction of a naphthalene-degrading bacterial community guided by metaproteomic data","display_name":"Context-specific metabolic network reconstruction of a naphthalene-degrading bacterial community guided by metaproteomic data","publication_year":2015,"publication_date":"2015-01-23","ids":{"openalex":"https://openalex.org/W2136384042","doi":"https://doi.org/10.1093/bioinformatics/btv036","mag":"2136384042","pmid":"https://pubmed.ncbi.nlm.nih.gov/25618865"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btv036","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv036","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/11/1771/17122113/btv036.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":null,"license_id":null,"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":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/31/11/1771/17122113/btv036.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5070151783","display_name":"Luis Tobalina","orcid":"https://orcid.org/0000-0002-1947-8309"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Luis Tobalina","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052130929","display_name":"Rafael Bargiela","orcid":"https://orcid.org/0000-0003-1442-3269"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Rafael Bargiela","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046646488","display_name":"Jon Pey","orcid":null},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Jon Pey","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076044114","display_name":"Florian\u2010Alexander Herbst","orcid":"https://orcid.org/0000-0002-4570-9158"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Florian-Alexander Herbst","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017349910","display_name":"Iv\u00e1n Lores","orcid":null},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Iv\u00e1n Lores","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5053146878","display_name":"David Rojo","orcid":"https://orcid.org/0000-0002-6085-4484"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"David Rojo","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085775380","display_name":"Coral Barbas","orcid":"https://orcid.org/0000-0003-4722-491X"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Coral Barbas","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077125680","display_name":"Ana I. Pel\u00e1ez","orcid":"https://orcid.org/0000-0001-5105-0356"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Ana I. Pel\u00e1ez","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101746942","display_name":"Jes\u00fas S\u00e1nchez","orcid":"https://orcid.org/0000-0002-9260-9985"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Jes\u00fas S\u00e1nchez","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076028970","display_name":"Martin von Bergen\ufffd","orcid":"https://orcid.org/0000-0003-2732-2977"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Martin von Bergen","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5035474246","display_name":"Jana Seifert","orcid":"https://orcid.org/0000-0002-7690-8539"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":false,"raw_author_name":"Jana Seifert","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059189176","display_name":"Manuel Ferrer","orcid":"https://orcid.org/0000-0003-4962-4714"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":true,"raw_author_name":"Manuel Ferrer","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010754980","display_name":"Francisco J. Planes","orcid":"https://orcid.org/0000-0003-1155-3105"},"institutions":[{"id":"https://openalex.org/I118091203","display_name":"Universidad San Pablo CEU","ror":"https://ror.org/00tvate34","country_code":"ES","type":"education","lineage":["https://openalex.org/I118091203","https://openalex.org/I2801318690"]},{"id":"https://openalex.org/I137479271","display_name":"Helmholtz Centre for Environmental Research","ror":"https://ror.org/000h6jb29","country_code":"DE","type":"facility","lineage":["https://openalex.org/I1305996414","https://openalex.org/I137479271"]},{"id":"https://openalex.org/I165339363","display_name":"Universidad de Oviedo","ror":"https://ror.org/006gksa02","country_code":"ES","type":"education","lineage":["https://openalex.org/I165339363"]},{"id":"https://openalex.org/I88155538","display_name":"Universidad de Navarra","ror":"https://ror.org/02rxc7m23","country_code":"ES","type":"education","lineage":["https://openalex.org/I88155538"]}],"countries":["DE","ES"],"is_corresponding":true,"raw_author_name":"Francisco J. Planes","raw_affiliation_strings":["1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 CEIT and Tecnun (University of Navarra), San Sebasti\u00e1n, Spain, 2 CSIC, Institute of Catalysis, Madrid, Spain, 3 Helmholtz Centre for Environmental Research, Department of Proteomics, Leipzig, Germany, 4 \u00c1rea de Microbiolog\u00eda, IUBA, Universidad de Oviedo, Oviedo, Spain, 5 Centro de Metabol\u00f3mica y Bioan\u00e1lisis (CEMBIO), Facultad de Farmacia, Universidad CEU San Pablo, Campus Monteprincipe, Boadilla del Monte, Madrid, Spain, 6 Department of Metabolomics, UFZ-Helmholtz-Zentrum f\u00fcr Umweltforschung GmbH, Leipzig, Germany and 7 Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark","institution_ids":["https://openalex.org/I118091203","https://openalex.org/I88155538","https://openalex.org/I165339363","https://openalex.org/I137479271"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5010754980","https://openalex.org/A5059189176"],"corresponding_institution_ids":["https://openalex.org/I118091203","https://openalex.org/I137479271","https://openalex.org/I165339363","https://openalex.org/I88155538"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.4098,"has_fulltext":true,"cited_by_count":34,"citation_normalized_percentile":{"value":0.8914113,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"31","issue":"11","first_page":"1771","last_page":"1779"},"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":0.9925000071525574,"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":0.9886000156402588,"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/context","display_name":"Context (archaeology)","score":0.6404839158058167},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4774875342845917},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3905988931655884},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2979925870895386}],"concepts":[{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.6404839158058167},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4774875342845917},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3905988931655884},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2979925870895386},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009281","descriptor_name":"Naphthalenes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009281","descriptor_name":"Naphthalenes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009281","descriptor_name":"Naphthalenes","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012989","descriptor_name":"Soil Pollutants","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012989","descriptor_name":"Soil Pollutants","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D012989","descriptor_name":"Soil Pollutants","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D040901","descriptor_name":"Proteomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":6,"locations":[{"id":"doi:10.1093/bioinformatics/btv036","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv036","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/11/1771/17122113/btv036.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25618865","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25618865","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:pure.atira.dk:openaire/cb1e71e0-bd15-4ea8-a06a-3a736a076dc7","is_oa":true,"landing_page_url":"https://vbn.aau.dk/da/publications/cb1e71e0-bd15-4ea8-a06a-3a736a076dc7","pdf_url":null,"source":{"id":"https://openalex.org/S4306401731","display_name":"VBN Forskningsportal (Aalborg Universitet)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I891191580","host_organization_name":"Aalborg University","host_organization_lineage":["https://openalex.org/I891191580"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Tobalina, L, Bargiela, R, Pey, J, Herbst, F-A, Lores, I, Rojo, D, Barbas, C, Pel\u00e1ez, A I, S\u00e1nchez, J, von Bergen, M, Seifert, J, Ferrer, M & Planes, F J 2015, 'Context-specific metabolic network reconstruction of a naphthalene-degrading bacterial community guided by metaproteomic data', Bioinformatics, vol. 31, no. 11, pp. 1771-1779. https://doi.org/10.1093/bioinformatics/btv036","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:digibuo.uniovi.es:10651/34148","is_oa":true,"landing_page_url":"http://hdl.handle.net/10651/34148","pdf_url":null,"source":{"id":"https://openalex.org/S4306402334","display_name":"Consultation of the Doctoral Thesis Database (TESEO) (Ministerio de Educaci\u00f3n, Cultura y Deporte)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801976130","host_organization_name":"Ministerio de Educaci\u00f3n Cultura y Deporte","host_organization_lineage":["https://openalex.org/I2801976130"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Scopus","raw_type":"info:eu-repo/semantics/conferenceObject"},{"id":"pmh:oai:digital.csic.es:10261/190515","is_oa":false,"landing_page_url":"http://hdl.handle.net/10261/190515","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"art\u00edculo"},{"id":"pmh:oai:open-archive.highwire.org:bioinfo:31/11/1771","is_oa":false,"landing_page_url":"http://bioinformatics.oxfordjournals.org/cgi/content/short/31/11/1771","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btv036","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btv036","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/31/11/1771/17122113/btv036.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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.6800000071525574,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G2920480290","display_name":null,"funder_award_id":"266473","funder_id":"https://openalex.org/F4320338366","funder_display_name":"FP7 Food, Agriculture and Fisheries, Biotechnology"},{"id":"https://openalex.org/G340015764","display_name":null,"funder_award_id":"312139","funder_id":"https://openalex.org/F4320338366","funder_display_name":"FP7 Food, Agriculture and Fisheries, Biotechnology"},{"id":"https://openalex.org/G3742907883","display_name":null,"funder_award_id":"BIO2011-25012","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G6078012479","display_name":null,"funder_award_id":"BIO2013-48933","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G75517025","display_name":null,"funder_award_id":"SPP1319","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G8380333270","display_name":null,"funder_award_id":"245226","funder_id":"https://openalex.org/F4320338366","funder_display_name":"FP7 Food, Agriculture and Fisheries, Biotechnology"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320321705","display_name":"Eusko Jaurlaritza","ror":"https://ror.org/00pz2fp31"},{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"},{"id":"https://openalex.org/F4320325113","display_name":"Fundaci\u00f3n para el Fomento en Asturias de la Investigaci\u00f3n Cient\u00edfica Aplicada y la Tecnolog\u00eda","ror":"https://ror.org/04kdcbs26"},{"id":"https://openalex.org/F4320335322","display_name":"European Regional Development Fund","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320338366","display_name":"FP7 Food, Agriculture and Fisheries, Biotechnology","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2136384042.pdf","grobid_xml":"https://content.openalex.org/works/W2136384042.grobid-xml"},"referenced_works_count":48,"referenced_works":["https://openalex.org/W1533737317","https://openalex.org/W1594674052","https://openalex.org/W1869952022","https://openalex.org/W1963587970","https://openalex.org/W1967067096","https://openalex.org/W1974662378","https://openalex.org/W1982013068","https://openalex.org/W2000206290","https://openalex.org/W2012991302","https://openalex.org/W2014504263","https://openalex.org/W2015751324","https://openalex.org/W2015854959","https://openalex.org/W2029403511","https://openalex.org/W2031993452","https://openalex.org/W2032408161","https://openalex.org/W2036282245","https://openalex.org/W2036289648","https://openalex.org/W2038523053","https://openalex.org/W2044752430","https://openalex.org/W2045506688","https://openalex.org/W2050073769","https://openalex.org/W2051334643","https://openalex.org/W2053964498","https://openalex.org/W2064334669","https://openalex.org/W2076262841","https://openalex.org/W2085966233","https://openalex.org/W2085993965","https://openalex.org/W2088209062","https://openalex.org/W2094125753","https://openalex.org/W2100084634","https://openalex.org/W2100318643","https://openalex.org/W2103950919","https://openalex.org/W2111973517","https://openalex.org/W2120167281","https://openalex.org/W2121411279","https://openalex.org/W2123988846","https://openalex.org/W2126994347","https://openalex.org/W2132092950","https://openalex.org/W2136832197","https://openalex.org/W2137591420","https://openalex.org/W2140194548","https://openalex.org/W2144589197","https://openalex.org/W2147637301","https://openalex.org/W2154061034","https://openalex.org/W2161273650","https://openalex.org/W2162666840","https://openalex.org/W2171219265","https://openalex.org/W4211218130"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"MOTIVATION:":[0],"With":[1],"the":[2,7,13,77,88,105,134,139,143,152,184,192,198,209],"advent":[3],"of":[4,9,16,57,83,97,109,194,211],"meta-'omics'":[5],"data,":[6],"use":[8],"metabolic":[10,61,107,144],"networks":[11,62,108],"for":[12,28,63,92,151,159],"functional":[14,136],"analysis":[15,210],"microbial":[17],"communities":[18,35,113],"became":[19],"possible.":[20],"However,":[21],"while":[22],"network-based":[23],"methods":[24],"are":[25,85],"widely":[26],"developed":[27],"single":[29],"organisms,":[30],"their":[31],"application":[32],"to":[33,103,132,190,208],"bacterial":[34,69],"is":[36,188],"currently":[37],"limited.":[38],"RESULTS:":[39],"Herein,":[40],"we":[41,71],"provide":[42],"a":[43,58,68,73],"novel,":[44],"context-specific":[45,106],"reconstruction":[46],"procedure":[47],"based":[48],"on":[49],"metaproteomic":[50],"and":[51,80,146,158,168,214],"taxonomic":[52,81],"data.":[53,216],"Without":[54],"previous":[55],"knowledge":[56],"high-quality,":[59],"genome-scale":[60],"each":[64,195],"different":[65,111,180],"member":[66,196],"in":[67,156,162,197],"community,":[70],"propose":[72],"meta-network":[74],"approach,":[75],"where":[76],"expression":[78],"levels":[79],"assignments":[82],"proteins":[84],"used":[86],"as":[87],"most":[89],"relevant":[90,189],"clues":[91],"inferring":[93],"an":[94,116,148],"active":[95],"set":[96],"reactions.":[98],"Our":[99],"approach":[100,201],"was":[101,166,175],"applied":[102],"draft":[104],"two":[110,140],"naphthalene-enriched":[112],"derived":[114],"from":[115],"anthropogenically":[117],"influenced,":[118],"polyaromatic":[119],"hydrocarbon":[120],"contaminated":[121],"soil,":[122],"with":[123,171],"(CN2)":[124],"or":[125],"without":[126],"(CN1)":[127],"bio-stimulation.":[128],"We":[129,177],"were":[130],"able":[131],"capture":[133],"overall":[135],"differences":[137],"between":[138],"conditions":[141],"at":[142,183],"level":[145],"predict":[147],"important":[149],"activity":[150],"fluorobenzoate":[153],"degradation":[154],"pathway":[155,181],"CN1":[157],"geraniol":[160],"metabolism":[161],"CN2.":[163],"Experimental":[164],"validation":[165],"conducted,":[167],"good":[169],"agreement":[170],"our":[172],"computational":[173],"predictions":[174],"observed.":[176],"also":[178],"hypothesize":[179],"organizations":[182],"organismal":[185],"level,":[186],"which":[187],"disentangle":[191],"role":[193],"communities.":[199],"The":[200],"presented":[202],"here":[203],"can":[204],"be":[205],"easily":[206],"transferred":[207],"genomic,":[212],"transcriptomic":[213],"metabolomic":[215]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":5},{"year":2016,"cited_by_count":6},{"year":2015,"cited_by_count":3}],"updated_date":"2026-06-18T10:00:31.954636","created_date":"2025-10-10T00:00:00"}
