{"id":"https://openalex.org/W2900402284","doi":"https://doi.org/10.1093/nar/gky1127","title":"IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes","display_name":"IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes","publication_year":2018,"publication_date":"2018-10-29","ids":{"openalex":"https://openalex.org/W2900402284","doi":"https://doi.org/10.1093/nar/gky1127","mag":"2900402284","pmid":"https://pubmed.ncbi.nlm.nih.gov/30407573"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gky1127","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gky1127","pdf_url":"https://academic.oup.com/nar/article-pdf/47/D1/D678/27437541/gky1127.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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","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/nar/article-pdf/47/D1/D678/27437541/gky1127.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5081848590","display_name":"David P\u00e1ez-Espino","orcid":"https://orcid.org/0000-0002-2939-5398"},"institutions":[{"id":"https://openalex.org/I196679689","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I196679689","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"David Paez-Espino","raw_affiliation_strings":["Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA","institution_ids":["https://openalex.org/I196679689"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013600763","display_name":"Simon Roux","orcid":"https://orcid.org/0000-0002-5831-5895"},"institutions":[{"id":"https://openalex.org/I196679689","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I196679689","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Simon Roux","raw_affiliation_strings":["Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA","institution_ids":["https://openalex.org/I196679689"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050011808","display_name":"I-Min A. Chen","orcid":"https://orcid.org/0000-0003-2026-9798"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"I-Min\u00a0A Chen","raw_affiliation_strings":["Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA, USA"],"affiliations":[{"raw_affiliation_string":"Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA, USA","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5038974860","display_name":"Krishna Palaniappan","orcid":"https://orcid.org/0000-0003-4484-7505"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Krishna Palaniappan","raw_affiliation_strings":["Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA, USA"],"affiliations":[{"raw_affiliation_string":"Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA, USA","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075093246","display_name":"Anna Ratner","orcid":"https://orcid.org/0000-0001-8877-2002"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Anna Ratner","raw_affiliation_strings":["Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA, USA"],"affiliations":[{"raw_affiliation_string":"Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA, USA","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040496456","display_name":"Ken Chu","orcid":"https://orcid.org/0000-0002-9602-1433"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ken Chu","raw_affiliation_strings":["Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA, USA"],"affiliations":[{"raw_affiliation_string":"Biological Data Management and Technology Center, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA, USA","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016953798","display_name":"Marcel Huntemann","orcid":"https://orcid.org/0000-0002-1284-3748"},"institutions":[{"id":"https://openalex.org/I196679689","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I196679689","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marcel Huntemann","raw_affiliation_strings":["Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA","institution_ids":["https://openalex.org/I196679689"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050966078","display_name":"T. B. K. Reddy","orcid":"https://orcid.org/0000-0002-0871-5567"},"institutions":[{"id":"https://openalex.org/I196679689","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I196679689","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"T\u00a0B\u00a0K Reddy","raw_affiliation_strings":["Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA","institution_ids":["https://openalex.org/I196679689"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022404104","display_name":"Joan Carles Pons","orcid":"https://orcid.org/0000-0002-0313-3357"},"institutions":[{"id":"https://openalex.org/I50441567","display_name":"Universitat de les Illes Balears","ror":"https://ror.org/03e10x626","country_code":"ES","type":"education","lineage":["https://openalex.org/I50441567"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Joan\u00a0Carles Pons","raw_affiliation_strings":["Department of Mathematics and Computer Science, University of the Balearic Islands, Spain"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics and Computer Science, University of the Balearic Islands, Spain","institution_ids":["https://openalex.org/I50441567"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086194329","display_name":"Merc\u00e8 Llabr\u00e9s","orcid":"https://orcid.org/0000-0002-5358-6768"},"institutions":[{"id":"https://openalex.org/I50441567","display_name":"Universitat de les Illes Balears","ror":"https://ror.org/03e10x626","country_code":"ES","type":"education","lineage":["https://openalex.org/I50441567"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Merc\u00e8 Llabr\u00e9s","raw_affiliation_strings":["Department of Mathematics and Computer Science, University of the Balearic Islands, Spain"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics and Computer Science, University of the Balearic Islands, Spain","institution_ids":["https://openalex.org/I50441567"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058414477","display_name":"Emiley A. Eloe\u2010Fadrosh","orcid":"https://orcid.org/0000-0002-8162-1276"},"institutions":[{"id":"https://openalex.org/I196679689","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I196679689","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Emiley\u00a0A Eloe-Fadrosh","raw_affiliation_strings":["Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA","institution_ids":["https://openalex.org/I196679689"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085966412","display_name":"Natalia Ivanova","orcid":"https://orcid.org/0000-0002-5802-9485"},"institutions":[{"id":"https://openalex.org/I196679689","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I196679689","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Natalia\u00a0N Ivanova","raw_affiliation_strings":["Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA","institution_ids":["https://openalex.org/I196679689"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023696415","display_name":"Nikos C. Kyrpides","orcid":"https://orcid.org/0000-0002-6131-0462"},"institutions":[{"id":"https://openalex.org/I196679689","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I196679689","https://openalex.org/I39565521"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Nikos\u00a0C Kyrpides","raw_affiliation_strings":["Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA","institution_ids":["https://openalex.org/I196679689"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":13,"corresponding_author_ids":["https://openalex.org/A5023696415","https://openalex.org/A5081848590"],"corresponding_institution_ids":["https://openalex.org/I196679689"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":23.3477,"has_fulltext":true,"cited_by_count":175,"citation_normalized_percentile":{"value":0.99737487,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"47","issue":"D1","first_page":"D678","last_page":"D686"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":1.0,"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"}},"topics":[{"id":"https://openalex.org/T11048","display_name":"Bacteriophages and microbial interactions","score":1.0,"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"}},{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9957000017166138,"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/T10494","display_name":"Plant Virus Research Studies","score":0.9940999746322632,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.8581597805023193},{"id":"https://openalex.org/keywords/prophage","display_name":"Prophage","score":0.7738249897956848},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7672783136367798},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.6266937255859375},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5463652014732361},{"id":"https://openalex.org/keywords/img","display_name":"IMG","score":0.48391658067703247},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.4722275733947754},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3900514841079712},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.3545781970024109},{"id":"https://openalex.org/keywords/bacteriophage","display_name":"Bacteriophage","score":0.21666619181632996},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15394911170005798},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.13126331567764282},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.10478830337524414}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.8581597805023193},{"id":"https://openalex.org/C73445445","wikidata":"https://www.wikidata.org/wiki/Q1712327","display_name":"Prophage","level":5,"score":0.7738249897956848},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7672783136367798},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.6266937255859375},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5463652014732361},{"id":"https://openalex.org/C126249665","wikidata":"https://www.wikidata.org/wiki/Q3146723","display_name":"IMG","level":2,"score":0.48391658067703247},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.4722275733947754},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3900514841079712},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.3545781970024109},{"id":"https://openalex.org/C2776441376","wikidata":"https://www.wikidata.org/wiki/Q165028","display_name":"Bacteriophage","level":4,"score":0.21666619181632996},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15394911170005798},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.13126331567764282},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.10478830337524414},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C547475151","wikidata":"https://www.wikidata.org/wiki/Q25419","display_name":"Escherichia coli","level":3,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D000079803","descriptor_name":"Data Management","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000079803","descriptor_name":"Data Management","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D000079803","descriptor_name":"Data Management","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016679","descriptor_name":"Genome, Viral","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":9,"locations":[{"id":"doi:10.1093/nar/gky1127","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gky1127","pdf_url":"https://academic.oup.com/nar/article-pdf/47/D1/D678/27437541/gky1127.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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:30407573","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30407573","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:docusalut.com:20.500.13003/8906","is_oa":true,"landing_page_url":"http://hdl.handle.net/20.500.13003/8906","pdf_url":null,"source":{"id":"https://openalex.org/S4306402504","display_name":"Docusalut (Conselleria de Salut i Consum del Govern de les Illes Balears)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210089844","host_organization_name":"Servei de Salut de les Illes Balears","host_organization_lineage":["https://openalex.org/I4210089844"],"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":"research article"},{"id":"pmh:oai:escholarship.org:ark:/13030/qt4nc2b94m","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/4nc2b94m","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Research, vol 47, iss D1","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5301917","is_oa":true,"landing_page_url":"http://europepmc.org/pmc/articles/PMC6323928","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:osti.gov:1490118","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1490118","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:osti.gov:1543989","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1543989","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:osti.gov:1650043","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1650043","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:6323928","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6323928","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/nar/gky1127","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gky1127","pdf_url":"https://academic.oup.com/nar/article-pdf/47/D1/D678/27437541/gky1127.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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1286236842","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3083819904","display_name":null,"funder_award_id":"05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G3562095311","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"},{"id":"https://openalex.org/G3944918260","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G425189044","display_name":null,"funder_award_id":"DE-AC02-05CH","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G4501827968","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4565140552","display_name":null,"funder_award_id":"-AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G4607389008","display_name":null,"funder_award_id":"MINECO/FEDER","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G4841871747","display_name":null,"funder_award_id":"DE_AC02-05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G498139845","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G5315912995","display_name":null,"funder_award_id":"11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G5602503670","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320316170","funder_display_name":"Joint Genome Institute"},{"id":"https://openalex.org/G5650879719","display_name":null,"funder_award_id":"DPI2015-67082-P","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G5673064472","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G5702505073","display_name":null,"funder_award_id":"DPI2015-67082-P","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"},{"id":"https://openalex.org/G5802748842","display_name":null,"funder_award_id":"DE-AC02-05CH112","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G5826542348","display_name":null,"funder_award_id":"MINECO/FEDER","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"},{"id":"https://openalex.org/G6330738325","display_name":null,"funder_award_id":"DE_AC02_05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6348972864","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6429026066","display_name":null,"funder_award_id":"DE-AC02-05CH112","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G6558272803","display_name":null,"funder_award_id":"DE-AC02","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7205239661","display_name":null,"funder_award_id":"AC02-05CH11231","funder_id":"https://openalex.org/F4320316170","funder_display_name":"Joint Genome Institute"},{"id":"https://openalex.org/G7340683655","display_name":null,"funder_award_id":"E-AC02-05CH11231","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7406122311","display_name":null,"funder_award_id":"AC02-05CH1123","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G7420919289","display_name":null,"funder_award_id":"FEDER","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"},{"id":"https://openalex.org/G7664691372","display_name":null,"funder_award_id":"DE-AC02-05CH1123","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G7825954517","display_name":null,"funder_award_id":"DE-AC02-05CH1123","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G8414908677","display_name":null,"funder_award_id":"DE-AC0","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"},{"id":"https://openalex.org/G897164627","display_name":null,"funder_award_id":"DE-AC02_05CH11231","funder_id":"https://openalex.org/F4320332359","funder_display_name":"Office of Science"},{"id":"https://openalex.org/G969889393","display_name":null,"funder_award_id":"DE-AC02-","funder_id":"https://openalex.org/F4320306084","funder_display_name":"U.S. Department of Energy"}],"funders":[{"id":"https://openalex.org/F4320306084","display_name":"U.S. Department of Energy","ror":"https://ror.org/01bj3aw27"},{"id":"https://openalex.org/F4320316170","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337"},{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"},{"id":"https://openalex.org/F4320332359","display_name":"Office of Science","ror":"https://ror.org/00mmn6b08"},{"id":"https://openalex.org/F4320335322","display_name":"European Regional Development Fund","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2900402284.pdf","grobid_xml":"https://content.openalex.org/works/W2900402284.grobid-xml"},"referenced_works_count":67,"referenced_works":["https://openalex.org/W1552724685","https://openalex.org/W1982265452","https://openalex.org/W2029551594","https://openalex.org/W2045701077","https://openalex.org/W2067127476","https://openalex.org/W2088302077","https://openalex.org/W2100641988","https://openalex.org/W2134375163","https://openalex.org/W2142678478","https://openalex.org/W2169899471","https://openalex.org/W2211193336","https://openalex.org/W2214186913","https://openalex.org/W2464076762","https://openalex.org/W2511687775","https://openalex.org/W2514983714","https://openalex.org/W2521169042","https://openalex.org/W2530896378","https://openalex.org/W2542090653","https://openalex.org/W2543855063","https://openalex.org/W2545536333","https://openalex.org/W2554394449","https://openalex.org/W2559020152","https://openalex.org/W2559100382","https://openalex.org/W2610784236","https://openalex.org/W2734327634","https://openalex.org/W2734399491","https://openalex.org/W2740966378","https://openalex.org/W2750791471","https://openalex.org/W2781485689","https://openalex.org/W2792729061","https://openalex.org/W2883563124","https://openalex.org/W2883885053","https://openalex.org/W2951692438","https://openalex.org/W2952246082","https://openalex.org/W4246954632","https://openalex.org/W6633151738","https://openalex.org/W6645690597","https://openalex.org/W6657840601","https://openalex.org/W6661931593","https://openalex.org/W6667066061","https://openalex.org/W6672730367","https://openalex.org/W6675218688","https://openalex.org/W6679785226","https://openalex.org/W6680740937","https://openalex.org/W6684748897","https://openalex.org/W6688378065","https://openalex.org/W6689132374","https://openalex.org/W6719157669","https://openalex.org/W6726071949","https://openalex.org/W6727169521","https://openalex.org/W6728749043","https://openalex.org/W6729050021","https://openalex.org/W6729074616","https://openalex.org/W6729288579","https://openalex.org/W6729967618","https://openalex.org/W6730262297","https://openalex.org/W6740703763","https://openalex.org/W6741351189","https://openalex.org/W6742113350","https://openalex.org/W6743972122","https://openalex.org/W6747676134","https://openalex.org/W6749537314","https://openalex.org/W6753327721","https://openalex.org/W6753658842","https://openalex.org/W6764333853","https://openalex.org/W6807695228","https://openalex.org/W7015929911"],"related_works":["https://openalex.org/W4398206047","https://openalex.org/W1993522840","https://openalex.org/W2792556531","https://openalex.org/W3011753877","https://openalex.org/W2130348632","https://openalex.org/W2794386548","https://openalex.org/W4381279187","https://openalex.org/W1992950355","https://openalex.org/W2013063066","https://openalex.org/W1841715584"],"abstract_inverted_index":{"The":[0],"Integrated":[1],"Microbial":[2],"Genome/Virus":[3],"(IMG/VR)":[4],"system":[5],"v.2.0":[6,105,170],"(https://img.jgi.doe.gov/vr/)":[7],"is":[8],"the":[9,23,28,33,74,128,175],"largest":[10],"publicly":[11],"available":[12],"data":[13,34,97],"management":[14],"and":[15,39,59,77,99,109,120,158],"analysis":[16],"platform":[17],"dedicated":[18],"to":[19,116,147],"viral":[20,62,75,85,122,150],"genomics.":[21],"Since":[22],"last":[24],"report":[25],"published":[26,51],"in":[27,37],"2016,":[29],"NAR":[30],"Database":[31],"Issue,":[32],"has":[35,155],"tripled":[36],"size":[38],"currently":[40],"contains":[41],"genomes":[42,76,151],"of":[43,73,101,165,177],"8389":[44],"cultivated":[45,56],"reference":[46],"viruses,":[47,111],"12":[48],"498":[49],"previously":[50],"curated":[52],"prophages":[53],"derived":[54],"from":[55,67],"microbial":[57],"isolates,":[58],"735":[60],"112":[61],"genomic":[63],"fragments":[64,79,154],"computationally":[65],"predicted":[66],"assembled":[68],"shotgun":[69],"metagenomes.":[70],"Nearly":[71],"60%":[72],"genome":[78,123,130,153],"are":[80],"clustered":[81],"into":[82],"110":[83],"384":[84],"Operational":[86],"Taxonomic":[87],"Units":[88],"(vOTUs)":[89],"with":[90],"two":[91],"or":[92,152],"more":[93],"members.":[94],"To":[95],"improve":[96,117],"quality":[98,124],"predictions":[100],"host":[102],"specificity,":[103],"IMG/VR":[104,169],"now":[106],"separates":[107],"prokaryotic":[108],"eukaryotic":[110],"utilizes":[112],"known":[113],"prophage":[114],"sequences":[115],"taxonomic":[118],"assignments,":[119],"provides":[121],"scores":[125],"based":[126],"on":[127],"estimated":[129],"completeness.":[131],"New":[132],"features":[133,167],"also":[134],"include":[135],"enhanced":[136],"BLAST":[137],"search":[138],"capabilities":[139],"for":[140,174],"external":[141],"queries.":[142],"Finally,":[143],"geographic":[144],"map":[145],"visualization":[146],"locate":[148],"user-selected":[149],"been":[156,162],"implemented":[157],"download":[159],"options":[160],"have":[161],"extended.":[163],"All":[164],"these":[166],"make":[168],"a":[171],"key":[172],"resource":[173],"study":[176],"viruses.":[178]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":10},{"year":2024,"cited_by_count":7},{"year":2023,"cited_by_count":11},{"year":2022,"cited_by_count":25},{"year":2021,"cited_by_count":58},{"year":2020,"cited_by_count":39},{"year":2019,"cited_by_count":20},{"year":2018,"cited_by_count":3}],"updated_date":"2026-03-27T14:29:43.386196","created_date":"2025-10-10T00:00:00"}
