{"id":"https://openalex.org/W4400800911","doi":"https://doi.org/10.1093/bioinformatics/btae455","title":"q2-metnet: QIIME2 package to analyse 16S rRNA data via high-quality metabolic reconstructions of the human gut microbiota","display_name":"q2-metnet: QIIME2 package to analyse 16S rRNA data via high-quality metabolic reconstructions of the human gut microbiota","publication_year":2024,"publication_date":"2024-07-16","ids":{"openalex":"https://openalex.org/W4400800911","doi":"https://doi.org/10.1093/bioinformatics/btae455","pmid":"https://pubmed.ncbi.nlm.nih.gov/39018187"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btae455","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae455","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae455/58575887/btae455.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/advance-article-pdf/doi/10.1093/bioinformatics/btae455/58575887/btae455.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5067155110","display_name":"Francesco Balzerani","orcid":"https://orcid.org/0000-0002-5608-5766"},"institutions":[{"id":"https://openalex.org/I4210113430","display_name":"Tecnalia","ror":"https://ror.org/02fv8hj62","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210113430"]},{"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":["ES"],"is_corresponding":false,"raw_author_name":"Francesco Balzerani","raw_affiliation_strings":["Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","institution_ids":["https://openalex.org/I4210113430"]},{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain","institution_ids":["https://openalex.org/I88155538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5059311338","display_name":"Telmo Blasco","orcid":"https://orcid.org/0000-0001-7819-8668"},"institutions":[{"id":"https://openalex.org/I4210113430","display_name":"Tecnalia","ror":"https://ror.org/02fv8hj62","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210113430"]},{"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":["ES"],"is_corresponding":false,"raw_author_name":"Telmo Blasco","raw_affiliation_strings":["Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","institution_ids":["https://openalex.org/I4210113430"]},{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain","institution_ids":["https://openalex.org/I88155538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056014601","display_name":"Sergio P\u00e9rez-Burillo","orcid":"https://orcid.org/0000-0001-6398-7496"},"institutions":[{"id":"https://openalex.org/I4210113430","display_name":"Tecnalia","ror":"https://ror.org/02fv8hj62","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210113430"]},{"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":["ES"],"is_corresponding":false,"raw_author_name":"Sergio P\u00e9rez-Burillo","raw_affiliation_strings":["Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain"],"raw_orcid":"https://orcid.org/0000-0001-6398-7496","affiliations":[{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","institution_ids":["https://openalex.org/I4210113430"]},{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain","institution_ids":["https://openalex.org/I88155538"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5021297859","display_name":"M. Pilar Francino","orcid":"https://orcid.org/0000-0002-4510-5653"},"institutions":[{"id":"https://openalex.org/I4210097149","display_name":"Fundaci\u00f3n para el Fomento de la Investigaci\u00f3n Sanitaria y Biom\u00e9dica de la Comunitat Valenciana","ror":"https://ror.org/0116vew40","country_code":"ES","type":"nonprofit","lineage":["https://openalex.org/I4210097149"]},{"id":"https://openalex.org/I4210154894","display_name":"Centro de Investigaci\u00f3n Biom\u00e9dica en Red de Epidemiolog\u00eda y Salud P\u00fablica","ror":"https://ror.org/050q0kv47","country_code":"ES","type":"facility","lineage":["https://openalex.org/I2801357902","https://openalex.org/I4210115082","https://openalex.org/I4210154894","https://openalex.org/I4387152914"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"M Pilar Francino","raw_affiliation_strings":["Area de Gen\u00f3mica y Salud, Fundaci\u00f3n para el Fomento de la Investigaci\u00f3n Sanitaria y Biom\u00e9dica de la Comunitat Valenciana-Salud P\u00fablica , Valencia, 46020,","CIBER en Epidemiolog\u00eda y Salud P\u00fablica , Madrid,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Area de Gen\u00f3mica y Salud, Fundaci\u00f3n para el Fomento de la Investigaci\u00f3n Sanitaria y Biom\u00e9dica de la Comunitat Valenciana-Salud P\u00fablica , Valencia, 46020,","institution_ids":["https://openalex.org/I4210097149"]},{"raw_affiliation_string":"CIBER en Epidemiolog\u00eda y Salud P\u00fablica , Madrid,","institution_ids":["https://openalex.org/I4210154894"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024132001","display_name":"Jos\u00e9 \u00c1ngel Rufi\u00e1n\u2010Henares","orcid":"https://orcid.org/0000-0002-1428-4353"},"institutions":[{"id":"https://openalex.org/I173304897","display_name":"Universidad de Granada","ror":"https://ror.org/04njjy449","country_code":"ES","type":"education","lineage":["https://openalex.org/I173304897"]},{"id":"https://openalex.org/I4210113665","display_name":"Instituto de Investigaci\u00f3n Biosanitaria de Granada","ror":"https://ror.org/026yy9j15","country_code":"ES","type":"facility","lineage":["https://openalex.org/I4210113665"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Jos\u00e9 \u00c1 Rufi\u00e1n-Henares","raw_affiliation_strings":["Departamento de Nutrici\u00f3n y Bromatolog\u00eda, Instituto de Nutrici\u00f3n y Tecnolog\u00eda de los Alimentos, Centro de Investigaci\u00f3n Biom\u00e9dica, Universidad de Granada , Granada, 18071,","Instituto de Investigaci\u00f3n Biosanitaria ibs.GRANADA, Universidad de Granada , Granada, 18071,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Departamento de Nutrici\u00f3n y Bromatolog\u00eda, Instituto de Nutrici\u00f3n y Tecnolog\u00eda de los Alimentos, Centro de Investigaci\u00f3n Biom\u00e9dica, Universidad de Granada , Granada, 18071,","institution_ids":["https://openalex.org/I173304897"]},{"raw_affiliation_string":"Instituto de Investigaci\u00f3n Biosanitaria ibs.GRANADA, Universidad de Granada , Granada, 18071,","institution_ids":["https://openalex.org/I173304897","https://openalex.org/I4210113665"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040584996","display_name":"Luis V. Valc\u00e1rcel","orcid":"https://orcid.org/0000-0003-3769-5419"},"institutions":[{"id":"https://openalex.org/I4210113430","display_name":"Tecnalia","ror":"https://ror.org/02fv8hj62","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210113430"]},{"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":["ES"],"is_corresponding":false,"raw_author_name":"Luis V Valcarcel","raw_affiliation_strings":["Biomedical Engineering Center, University of Navarra , Pamplona 31009,","Instituto de Ciencia de los Datos e Inteligencia Artificial (DATAI), University of Navarra , Pamplona 31009,","Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","Biomedical Engineering Center, University of Navarra, Pamplona, 31009, Spain","Instituto de Ciencia de los Datos e Inteligencia Artificial (DATAI), University of Navarra, Pamplona, 31009, Spain","Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain"],"raw_orcid":"https://orcid.org/0000-0003-3769-5419","affiliations":[{"raw_affiliation_string":"Biomedical Engineering Center, University of Navarra , Pamplona 31009,","institution_ids":["https://openalex.org/I88155538"]},{"raw_affiliation_string":"Instituto de Ciencia de los Datos e Inteligencia Artificial (DATAI), University of Navarra , Pamplona 31009,","institution_ids":["https://openalex.org/I88155538"]},{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","institution_ids":["https://openalex.org/I4210113430"]},{"raw_affiliation_string":"Biomedical Engineering Center, University of Navarra, Pamplona, 31009, Spain","institution_ids":["https://openalex.org/I88155538"]},{"raw_affiliation_string":"Instituto de Ciencia de los Datos e Inteligencia Artificial (DATAI), University of Navarra, Pamplona, 31009, Spain","institution_ids":["https://openalex.org/I88155538"]},{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain","institution_ids":["https://openalex.org/I88155538"]}]},{"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/I4210113430","display_name":"Tecnalia","ror":"https://ror.org/02fv8hj62","country_code":"ES","type":"other","lineage":["https://openalex.org/I4210113430"]},{"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":["ES"],"is_corresponding":true,"raw_author_name":"Francisco J Planes","raw_affiliation_strings":["Biomedical Engineering Center, University of Navarra , Pamplona 31009,","Instituto de Ciencia de los Datos e Inteligencia Artificial (DATAI), University of Navarra , Pamplona 31009,","Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","Biomedical Engineering Center, University of Navarra, Pamplona, 31009, Spain","Instituto de Ciencia de los Datos e Inteligencia Artificial (DATAI), University of Navarra, Pamplona, 31009, Spain","Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain"],"raw_orcid":"https://orcid.org/0000-0003-1155-3105","affiliations":[{"raw_affiliation_string":"Biomedical Engineering Center, University of Navarra , Pamplona 31009,","institution_ids":["https://openalex.org/I88155538"]},{"raw_affiliation_string":"Instituto de Ciencia de los Datos e Inteligencia Artificial (DATAI), University of Navarra , Pamplona 31009,","institution_ids":["https://openalex.org/I88155538"]},{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra , San Sebastian 20018,","institution_ids":["https://openalex.org/I4210113430"]},{"raw_affiliation_string":"Biomedical Engineering Center, University of Navarra, Pamplona, 31009, Spain","institution_ids":["https://openalex.org/I88155538"]},{"raw_affiliation_string":"Instituto de Ciencia de los Datos e Inteligencia Artificial (DATAI), University of Navarra, Pamplona, 31009, Spain","institution_ids":["https://openalex.org/I88155538"]},{"raw_affiliation_string":"Tecnun School of Engineering, Biomedical Engineering and Sciences Department, University of Navarra, San Sebastian, 20018, Spain","institution_ids":["https://openalex.org/I88155538"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5010754980"],"corresponding_institution_ids":["https://openalex.org/I4210113430","https://openalex.org/I88155538"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.8088,"has_fulltext":true,"cited_by_count":5,"citation_normalized_percentile":{"value":0.69939623,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":97},"biblio":{"volume":"40","issue":"11","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10066","display_name":"Gut microbiota and health","score":0.9927999973297119,"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/T10066","display_name":"Gut microbiota and health","score":0.9927999973297119,"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/T11288","display_name":"Clostridium difficile and Clostridium perfringens research","score":0.0010000000474974513,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T10257","display_name":"Oral microbiology and periodontitis research","score":0.00039999998989515007,"subfield":{"id":"https://openalex.org/subfields/3506","display_name":"Periodontics"},"field":{"id":"https://openalex.org/fields/35","display_name":"Dentistry"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/16s-ribosomal-rna","display_name":"16S ribosomal RNA","score":0.5830222964286804},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5792144536972046},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5526599287986755},{"id":"https://openalex.org/keywords/inference","display_name":"Inference","score":0.5077155828475952},{"id":"https://openalex.org/keywords/ribosomal-rna","display_name":"Ribosomal RNA","score":0.45003411173820496},{"id":"https://openalex.org/keywords/gut-flora","display_name":"Gut flora","score":0.4400206208229065},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.3429475426673889},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3130127787590027},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.28382325172424316},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.16669461131095886},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.06221124529838562}],"concepts":[{"id":"https://openalex.org/C42062724","wikidata":"https://www.wikidata.org/wiki/Q1209205","display_name":"16S ribosomal RNA","level":3,"score":0.5830222964286804},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5792144536972046},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5526599287986755},{"id":"https://openalex.org/C2776214188","wikidata":"https://www.wikidata.org/wiki/Q408386","display_name":"Inference","level":2,"score":0.5077155828475952},{"id":"https://openalex.org/C67905577","wikidata":"https://www.wikidata.org/wiki/Q215980","display_name":"Ribosomal RNA","level":3,"score":0.45003411173820496},{"id":"https://openalex.org/C539455810","wikidata":"https://www.wikidata.org/wiki/Q739734","display_name":"Gut flora","level":2,"score":0.4400206208229065},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.3429475426673889},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3130127787590027},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.28382325172424316},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.16669461131095886},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.06221124529838562}],"mesh":[{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069196","descriptor_name":"Gastrointestinal Microbiome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012336","descriptor_name":"RNA, Ribosomal, 16S","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btae455","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae455","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae455/58575887/btae455.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:39018187","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39018187","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:digibug.ugr.es:10481/97475","is_oa":true,"landing_page_url":"https://hdl.handle.net/10481/97475","pdf_url":"https://digibug.ugr.es/bitstream/10481/97475/1/btae455.pdf","source":{"id":"https://openalex.org/S4306400567","display_name":"Institutional Repository of the University of Granada (University of Granada)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I173304897","host_organization_name":"Universidad de Granada","host_organization_lineage":["https://openalex.org/I173304897"],"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":"journal article"},{"id":"pmh:oai:pubmedcentral.nih.gov:11561042","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11561042","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11561042/pdf/btae455.pdf","source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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"},{"id":"pmh:oai:riuma.uma.es:10630/38634","is_oa":true,"landing_page_url":"https://hdl.handle.net/10630/38634","pdf_url":null,"source":{"id":"https://openalex.org/S4306401385","display_name":"Repositorio Institucional de la Universidad de M\u00e1laga (University of M\u00e1laga)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I82767444","host_organization_name":"Universidad de M\u00e1laga","host_organization_lineage":["https://openalex.org/I82767444"],"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":null,"raw_type":"journal article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btae455","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btae455","pdf_url":"https://academic.oup.com/bioinformatics/advance-article-pdf/doi/10.1093/bioinformatics/btae455/58575887/btae455.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":[{"display_name":"Industry, innovation and infrastructure","score":0.4399999976158142,"id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G434337789","display_name":null,"funder_award_id":"HORIZON2020","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"},{"id":"https://openalex.org/G5515204682","display_name":"Smart Technologies for personAlised Nutrition and Consumer Engagement","funder_award_id":"816303","funder_id":"https://openalex.org/F4320320300","funder_display_name":"European Commission"}],"funders":[{"id":"https://openalex.org/F4320320300","display_name":"European Commission","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320322930","display_name":"Ministerio de Ciencia e Innovaci\u00f3n","ror":"https://ror.org/034900433"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4400800911.pdf"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W2023000840","https://openalex.org/W2036006402","https://openalex.org/W2055043387","https://openalex.org/W2110256992","https://openalex.org/W2159482845","https://openalex.org/W2340423564","https://openalex.org/W2342540743","https://openalex.org/W2401404581","https://openalex.org/W2559597060","https://openalex.org/W2561141101","https://openalex.org/W2604323123","https://openalex.org/W2767088268","https://openalex.org/W2807194798","https://openalex.org/W2809358912","https://openalex.org/W2951327715","https://openalex.org/W2963276645","https://openalex.org/W3030441098","https://openalex.org/W3031621681","https://openalex.org/W3158308451","https://openalex.org/W3174325225","https://openalex.org/W3190067671","https://openalex.org/W3193433002","https://openalex.org/W4210300516","https://openalex.org/W4210851913","https://openalex.org/W4226342858","https://openalex.org/W4285093271","https://openalex.org/W4294216483","https://openalex.org/W4295123777","https://openalex.org/W4317499868","https://openalex.org/W4386136714"],"related_works":["https://openalex.org/W2055243143","https://openalex.org/W3111703679","https://openalex.org/W2533039529","https://openalex.org/W2883983284","https://openalex.org/W3009923349","https://openalex.org/W1984829519","https://openalex.org/W4318269789","https://openalex.org/W4389235700","https://openalex.org/W4399755008","https://openalex.org/W1968982238"],"abstract_inverted_index":{"MOTIVATION:":[0],"16S":[1,32,64,90,160,187,248],"rRNA":[2,33,65,91,161,188,249],"gene":[3,34,92],"sequencing":[4,35,93],"is":[5,37,263],"the":[6,11,14,22,24,46,87,113,119,128,177,197,218,230,252],"most":[7],"frequent":[8],"approach":[9],"for":[10,112,135],"characterization":[12],"of":[13,26,45,89,105,233,261],"human":[15,47,253],"gut":[16,48,231,254],"microbiota.":[17,255],"Despite":[18],"different":[19,206],"efforts":[20],"in":[21,118,204,225,229,265],"literature,":[23],"inference":[25,62],"functional":[27,61,227],"and":[28,53,97,115,137,146,173,176,192,214,267],"metabolic":[29,43,121,245],"interpretations":[30],"from":[31,63,155,163,166,190,251],"data":[36,94,162,189,250],"still":[38],"a":[39,56,82,153,239],"challenging":[40],"task.":[41],"High-quality":[42],"reconstructions":[44],"microbiota,":[49],"such":[50],"as":[51,139,141],"AGORA":[52,96],"AGREDA,":[54],"constitute":[55],"curated":[57],"resource":[58],"to":[59,130,152,169,243,247],"improve":[60],"data,":[66],"but":[67],"they":[68],"are":[69],"not":[70],"typically":[71],"integrated":[72],"into":[73,95],"standard":[74],"bioinformatics":[75,241],"tools.":[76],"RESULTS:":[77],"Here,":[78],"we":[79],"present":[80],"q2-metnet,":[81],"QIIME2":[83],"plugin":[84],"that":[85,158],"enables":[86],"contextualization":[88],"AGREDA.":[98],"In":[99,196,217],"particular,":[100],"based":[101,209],"on":[102,210],"relative":[103],"abundances":[104,213],"taxa,":[106],"q2-metnet":[107,126,151,200,221,237,262],"determines":[108],"normalized":[109],"activity":[110,133],"scores":[111],"reactions":[114,136],"subsystems":[116],"involved":[117],"selected":[120],"reconstruction.":[122],"Using":[123],"these":[124],"scores,":[125],"allows":[127],"user":[129],"conduct":[131],"differential":[132],"analysis":[134,143],"subsystems,":[138],"well":[140],"exploratory":[142],"using":[144],"PCA":[145],"hierarchical":[147],"clustering.":[148],"We":[149],"apply":[150],"dataset":[154],"our":[156],"group":[157],"involves":[159],"stool":[164],"samples":[165],"lean,":[167],"allergic":[168],"cow's":[170],"milk,":[171],"obese":[172,191,234],"celiac":[174],"children,":[175],"Belgian":[178],"Flemish":[179],"Gut":[180],"Flora":[181],"Project":[182],"cohort,":[183],"which":[184],"includes":[185],"faecal":[186],"normal-weight":[193],"adult":[194],"individuals.":[195,235],"first":[198],"case,":[199,220],"outperforms":[201],"existing":[202],"algorithms":[203],"separating":[205],"clinical":[207],"conditions":[208],"predicted":[211],"pathway":[212],"subsystem":[215],"scores.":[216],"second":[219],"complements":[222],"competing":[223],"approaches":[224],"predicting":[226],"alterations":[228],"microbiota":[232],"Overall,":[236],"constitutes":[238],"powerful":[240],"tool":[242],"provide":[244],"context":[246],"AVAILABILITY":[256],"AND":[257],"IMPLEMENTATION:":[258],"Python":[259],"code":[260],"available":[264],"https://github.com/PlanesLab/q2-metnet":[266],"https://figshare.com/articles/dataset/q2-metnet_package/26180446.":[268]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2024-07-19T00:00:00"}
