{"id":"https://openalex.org/W2984894304","doi":"https://doi.org/10.1093/nar/gkz1035","title":"MGnify: the microbiome analysis resource in 2020","display_name":"MGnify: the microbiome analysis resource in 2020","publication_year":2019,"publication_date":"2019-10-23","ids":{"openalex":"https://openalex.org/W2984894304","doi":"https://doi.org/10.1093/nar/gkz1035","mag":"2984894304","pmid":"https://pubmed.ncbi.nlm.nih.gov/31696235"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkz1035","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz1035","pdf_url":"https://academic.oup.com/nar/article-pdf/48/D1/D570/31697708/gkz1035.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","datacite","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/nar/article-pdf/48/D1/D570/31697708/gkz1035.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5083616654","display_name":"Alex Mitchell","orcid":"https://orcid.org/0000-0001-8655-7966"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Alex L Mitchell","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082240217","display_name":"Alexandre Almeida","orcid":"https://orcid.org/0000-0001-8803-0893"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]},{"id":"https://openalex.org/I2802476451","display_name":"Wellcome Sanger Institute","ror":"https://ror.org/05cy4wa09","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I2802476451","https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Alexandre Almeida","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]},{"raw_affiliation_string":"Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK","institution_ids":["https://openalex.org/I2802476451"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062712572","display_name":"Mart\u00edn Beracochea","orcid":"https://orcid.org/0000-0003-3472-3736"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Martin Beracochea","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080800055","display_name":"Miguel Boland","orcid":"https://orcid.org/0000-0002-2703-8936"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Miguel Boland","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057303658","display_name":"Josephine Burgin","orcid":"https://orcid.org/0000-0002-9818-1094"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Josephine Burgin","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072348463","display_name":"Guy Cochrane","orcid":"https://orcid.org/0000-0001-7954-7057"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Guy Cochrane","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020288899","display_name":"Michael R. Crusoe","orcid":"https://orcid.org/0000-0002-2961-9670"},"institutions":[{"id":"https://openalex.org/I2801522054","display_name":"Freedom House","ror":"https://ror.org/021f23q27","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I2801522054"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael R Crusoe","raw_affiliation_strings":["Common Workflow Language, a project of the Software Freedom Conservancy, Inc. 137 Montague Street, Suite 380, Brooklyn, NY 11201-3548, USA"],"affiliations":[{"raw_affiliation_string":"Common Workflow Language, a project of the Software Freedom Conservancy, Inc. 137 Montague Street, Suite 380, Brooklyn, NY 11201-3548, USA","institution_ids":["https://openalex.org/I2801522054"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071366091","display_name":"Varsha Kale","orcid":"https://orcid.org/0000-0002-3503-6383"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Varsha Kale","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075070129","display_name":"Simon Potter","orcid":"https://orcid.org/0000-0003-4208-4102"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Simon C Potter","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5114376389","display_name":"Lorna Richardson","orcid":"https://orcid.org/0000-0002-3655-5660"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Lorna J Richardson","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038373632","display_name":"Ekaterina Sakharova","orcid":"https://orcid.org/0000-0001-6867-2039"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Ekaterina Sakharova","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074363827","display_name":"Maxim Scheremetjew","orcid":"https://orcid.org/0000-0002-7458-3072"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Maxim Scheremetjew","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082993256","display_name":"Anton Korobeynikov","orcid":"https://orcid.org/0000-0002-2937-9259"},"institutions":[{"id":"https://openalex.org/I172901346","display_name":"St Petersburg University","ror":"https://ror.org/023znxa73","country_code":"RU","type":"education","lineage":["https://openalex.org/I172901346"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Anton Korobeynikov","raw_affiliation_strings":["Center for Algorithmic Biotechnologies, Saint Petersburg State University, Russia"],"affiliations":[{"raw_affiliation_string":"Center for Algorithmic Biotechnologies, Saint Petersburg State University, Russia","institution_ids":["https://openalex.org/I172901346"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044824498","display_name":"Alexander Shlemov","orcid":"https://orcid.org/0000-0002-2317-8587"},"institutions":[{"id":"https://openalex.org/I172901346","display_name":"St Petersburg University","ror":"https://ror.org/023znxa73","country_code":"RU","type":"education","lineage":["https://openalex.org/I172901346"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Alex Shlemov","raw_affiliation_strings":["Center for Algorithmic Biotechnologies, Saint Petersburg State University, Russia"],"affiliations":[{"raw_affiliation_string":"Center for Algorithmic Biotechnologies, Saint Petersburg State University, Russia","institution_ids":["https://openalex.org/I172901346"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5011625737","display_name":"Olga Kunyavskaya","orcid":"https://orcid.org/0000-0001-9544-6344"},"institutions":[{"id":"https://openalex.org/I172901346","display_name":"St Petersburg University","ror":"https://ror.org/023znxa73","country_code":"RU","type":"education","lineage":["https://openalex.org/I172901346"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Olga Kunyavskaya","raw_affiliation_strings":["Center for Algorithmic Biotechnologies, Saint Petersburg State University, Russia"],"affiliations":[{"raw_affiliation_string":"Center for Algorithmic Biotechnologies, Saint Petersburg State University, Russia","institution_ids":["https://openalex.org/I172901346"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025927694","display_name":"Alla Lapidus","orcid":"https://orcid.org/0000-0003-0427-8731"},"institutions":[{"id":"https://openalex.org/I172901346","display_name":"St Petersburg University","ror":"https://ror.org/023znxa73","country_code":"RU","type":"education","lineage":["https://openalex.org/I172901346"]}],"countries":["RU"],"is_corresponding":false,"raw_author_name":"Alla Lapidus","raw_affiliation_strings":["Center for Algorithmic Biotechnologies, Saint Petersburg State University, Russia"],"affiliations":[{"raw_affiliation_string":"Center for Algorithmic Biotechnologies, Saint Petersburg State University, Russia","institution_ids":["https://openalex.org/I172901346"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5104045098","display_name":"ROBERT FINN","orcid":"https://orcid.org/0000-0001-8626-2148"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Robert D Finn","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge CB10 1SD, UK","institution_ids":["https://openalex.org/I1303153112"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":17,"corresponding_author_ids":["https://openalex.org/A5104045098"],"corresponding_institution_ids":["https://openalex.org/I1303153112"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":26.5377,"has_fulltext":false,"cited_by_count":632,"citation_normalized_percentile":{"value":0.99794921,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"48","issue":"D1","first_page":"D570","last_page":"D578"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994000196456909,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994000196456909,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9939000010490417,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9937000274658203,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.8904323577880859},{"id":"https://openalex.org/keywords/contig","display_name":"Contig","score":0.7574710845947266},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7467404007911682},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.7343378067016602},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6675998568534851},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.6099535226821899},{"id":"https://openalex.org/keywords/microbiome","display_name":"Microbiome","score":0.5717018842697144},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.5136787295341492},{"id":"https://openalex.org/keywords/human-microbiome-project","display_name":"Human Microbiome Project","score":0.47659415006637573},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4428720474243164},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.36447685956954956},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.35600313544273376},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.290158748626709},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.24617606401443481},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.22566649317741394},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.18756741285324097},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1488519012928009}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.8904323577880859},{"id":"https://openalex.org/C59582021","wikidata":"https://www.wikidata.org/wiki/Q1128751","display_name":"Contig","level":4,"score":0.7574710845947266},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7467404007911682},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.7343378067016602},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6675998568534851},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.6099535226821899},{"id":"https://openalex.org/C143121216","wikidata":"https://www.wikidata.org/wiki/Q1330402","display_name":"Microbiome","level":2,"score":0.5717018842697144},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.5136787295341492},{"id":"https://openalex.org/C190944805","wikidata":"https://www.wikidata.org/wiki/Q3922751","display_name":"Human Microbiome Project","level":4,"score":0.47659415006637573},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4428720474243164},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.36447685956954956},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.35600313544273376},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.290158748626709},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.24617606401443481},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.22566649317741394},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.18756741285324097},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1488519012928009},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"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":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","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":"D021903","descriptor_name":"DNA, Ribosomal Spacer","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D021903","descriptor_name":"DNA, Ribosomal Spacer","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D021903","descriptor_name":"DNA, Ribosomal Spacer","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","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":4,"locations":[{"id":"doi:10.1093/nar/gkz1035","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz1035","pdf_url":"https://academic.oup.com/nar/article-pdf/48/D1/D570/31697708/gkz1035.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:31696235","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31696235","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":"Nucleic acids research","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:7145632","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7145632","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":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"},{"id":"doi:10.25504/fairsharing.dxj07r","is_oa":true,"landing_page_url":"https://doi.org/10.25504/fairsharing.dxj07r","pdf_url":null,"source":{"id":"https://openalex.org/S7407053452","display_name":"FAIRsharing.org","issn_l":null,"issn":[],"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":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"dataset"}],"best_oa_location":{"id":"doi:10.1093/nar/gkz1035","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkz1035","pdf_url":"https://academic.oup.com/nar/article-pdf/48/D1/D570/31697708/gkz1035.pdf","source":{"id":"https://openalex.org/S134668137","display_name":"Nucleic Acids Research","issn_l":"0305-1048","issn":["0305-1048","1362-4954","1362-4962"],"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":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.4399999976158142,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G4603948240","display_name":null,"funder_award_id":"BB/R015228/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G5040315192","display_name":null,"funder_award_id":"676559","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"},{"id":"https://openalex.org/G5597837353","display_name":null,"funder_award_id":"817729","funder_id":"https://openalex.org/F4320332999","funder_display_name":"Horizon 2020 Framework Programme"},{"id":"https://openalex.org/G5791698512","display_name":null,"funder_award_id":"BB/M011755/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G8455383874","display_name":null,"funder_award_id":"BB/I02612X/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G995402835","display_name":null,"funder_award_id":"BB/N018354/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320314023","display_name":"European Molecular Biology Laboratory","ror":"https://ror.org/050589e39"},{"id":"https://openalex.org/F4320332999","display_name":"Horizon 2020 Framework Programme","ror":"https://ror.org/00k4n6c32"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2984894304.pdf","grobid_xml":"https://content.openalex.org/works/W2984894304.grobid-xml"},"referenced_works_count":57,"referenced_works":["https://openalex.org/W2021341670","https://openalex.org/W2034285706","https://openalex.org/W2045204781","https://openalex.org/W2057970678","https://openalex.org/W2069689025","https://openalex.org/W2085926377","https://openalex.org/W2102461176","https://openalex.org/W2103017472","https://openalex.org/W2107597310","https://openalex.org/W2110256992","https://openalex.org/W2120141270","https://openalex.org/W2131271579","https://openalex.org/W2136632285","https://openalex.org/W2138122982","https://openalex.org/W2139437267","https://openalex.org/W2143485490","https://openalex.org/W2166123725","https://openalex.org/W2223752691","https://openalex.org/W2302501749","https://openalex.org/W2572263783","https://openalex.org/W2599417231","https://openalex.org/W2607211817","https://openalex.org/W2609551972","https://openalex.org/W2626316678","https://openalex.org/W2748559568","https://openalex.org/W2757815815","https://openalex.org/W2766358903","https://openalex.org/W2766822634","https://openalex.org/W2766848373","https://openalex.org/W2773787581","https://openalex.org/W2895532240","https://openalex.org/W2898201023","https://openalex.org/W2898402099","https://openalex.org/W2898548494","https://openalex.org/W2900030356","https://openalex.org/W2900359059","https://openalex.org/W2904550091","https://openalex.org/W2910615673","https://openalex.org/W2913972921","https://openalex.org/W2918015010","https://openalex.org/W2920716817","https://openalex.org/W2921815890","https://openalex.org/W2922279770","https://openalex.org/W2933055545","https://openalex.org/W2937916685","https://openalex.org/W2944548763","https://openalex.org/W2948160364","https://openalex.org/W2949841808","https://openalex.org/W2953008890","https://openalex.org/W2955573656","https://openalex.org/W2965886932","https://openalex.org/W2970509811","https://openalex.org/W2973821866","https://openalex.org/W2984894304","https://openalex.org/W2991239467","https://openalex.org/W4252710376","https://openalex.org/W6768452474"],"related_works":["https://openalex.org/W2330186985","https://openalex.org/W2950447380","https://openalex.org/W2345730070","https://openalex.org/W2107854630","https://openalex.org/W4319294554","https://openalex.org/W4394186879","https://openalex.org/W2391004329","https://openalex.org/W2055448750","https://openalex.org/W3134563641","https://openalex.org/W1986608492"],"abstract_inverted_index":{"MGnify":[0,33],"(http://www.ebi.ac.uk/metagenomics)":[1],"provides":[2,178],"a":[3,173],"free":[4],"to":[5,56,77],"use":[6],"platform":[7],"for":[8,104,129],"the":[9,29,41,50,65,78,87,136,144,161,182],"assembly,":[10],"analysis":[11,58,71,99],"and":[12,81,95,115,122,151,185],"archiving":[13],"of":[14,43,138,146,181],"microbiome":[15],"data":[16,57,140],"derived":[17],"from":[18,160],"sequencing":[19],"microbial":[20],"populations":[21],"that":[22,73,82],"are":[23,74,83],"present":[24],"in":[25],"particular":[26],"environments.":[27],"Over":[28],"past":[30],"2":[31],"years,":[32],"(formerly":[34],"EBI":[35],"Metagenomics)":[36],"has":[37,59,141,149],"more":[38],"than":[39],"doubled":[40],"number":[42,145],"publicly":[44],"available":[45],"analysed":[46,152],"datasets":[47,147],"held":[48],"within":[49],"resource.":[51],"Recently,":[52],"an":[53],"updated":[54],"approach":[55],"been":[60,127],"unveiled":[61],"(version":[62],"5.0),":[63],"replacing":[64],"previous":[66],"single":[67],"pipeline":[68],"with":[69],"multiple":[70],"pipelines":[72,100],"tailored":[75],"according":[76],"input":[79],"data,":[80],"formally":[84],"described":[85],"using":[86],"Common":[88],"Workflow":[89],"Language,":[90],"enabling":[91],"greater":[92],"provenance,":[93],"reusability,":[94],"reproducibility.":[96],"MGnify's":[97,132],"new":[98],"offer":[101],"additional":[102],"approaches":[103],"taxonomic":[105],"assertions":[106],"based":[107],"on":[108,135],"ribosomal":[109],"internal":[110],"transcribed":[111],"spacer":[112],"regions":[113],"(ITS1/2)":[114],"expanded":[116],"protein":[117,157],"functional":[118],"annotations.":[119,188],"Biochemical":[120],"pathways":[121],"systems":[123],"predictions":[124],"have":[125],"also":[126,142],"added":[128],"assembled":[130,150,183],"contigs.":[131],"growing":[133],"focus":[134],"assembly":[137],"metagenomic":[139],"seen":[143],"it":[148],"increase":[153],"six-fold.":[154],"The":[155],"non-redundant":[156],"database":[158],"constructed":[159],"proteins":[162],"encoded":[163],"by":[164],"these":[165],"assemblies":[166],"now":[167],"exceeds":[168],"1":[169],"billion":[170],"sequences.":[171],"Meanwhile,":[172],"newly":[174],"developed":[175],"contig":[176],"viewer":[177],"fine-grained":[179],"visualisation":[180],"contigs":[184],"their":[186],"enriched":[187]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":72},{"year":2024,"cited_by_count":109},{"year":2023,"cited_by_count":139},{"year":2022,"cited_by_count":150},{"year":2021,"cited_by_count":114},{"year":2020,"cited_by_count":41},{"year":2019,"cited_by_count":2}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2019-11-22T00:00:00"}
