{"id":"https://openalex.org/W2149559438","doi":"https://doi.org/10.1093/nar/gkp938","title":"ACLAME: A CLAssification of Mobile genetic Elements, update 2010","display_name":"ACLAME: A CLAssification of Mobile genetic Elements, update 2010","publication_year":2009,"publication_date":"2009-11-23","ids":{"openalex":"https://openalex.org/W2149559438","doi":"https://doi.org/10.1093/nar/gkp938","mag":"2149559438","pmid":"https://pubmed.ncbi.nlm.nih.gov/19933762"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkp938","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp938","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_1/D57/11218182/gkp938.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/38/suppl_1/D57/11218182/gkp938.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057637115","display_name":"Rapha\u00ebl Leplae","orcid":null},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":true,"raw_author_name":"Rapha\u00ebl Leplae","raw_affiliation_strings":["Bioinformatique des G\u00e9nomes et des R\u00e9seaux, Universit\u00e9 Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium. raphael@bigre.ulb.ac.be","Bioinformatique des Ge \u00b4nomes et des Re \u00b4seaux, Universite \u00b4Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium"],"affiliations":[{"raw_affiliation_string":"Bioinformatique des G\u00e9nomes et des R\u00e9seaux, Universit\u00e9 Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium. raphael@bigre.ulb.ac.be","institution_ids":["https://openalex.org/I132053463"]},{"raw_affiliation_string":"Bioinformatique des Ge \u00b4nomes et des Re \u00b4seaux, Universite \u00b4Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium","institution_ids":["https://openalex.org/I132053463"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068548156","display_name":"Gipsi Lima\u2010Mendez","orcid":"https://orcid.org/0000-0002-5309-1845"},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Gipsi Lima-Mendez","raw_affiliation_strings":["Bioinformatique des Ge nomes et des Re seaux, Universite Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium","Bioinformatique des Ge \u00b4nomes et des Re \u00b4seaux, Universite \u00b4Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium"],"affiliations":[{"raw_affiliation_string":"Bioinformatique des Ge nomes et des Re seaux, Universite Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium","institution_ids":["https://openalex.org/I132053463"]},{"raw_affiliation_string":"Bioinformatique des Ge \u00b4nomes et des Re \u00b4seaux, Universite \u00b4Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium","institution_ids":["https://openalex.org/I132053463"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111637728","display_name":"Ariane Toussaint","orcid":null},"institutions":[{"id":"https://openalex.org/I132053463","display_name":"Universit\u00e9 Libre de Bruxelles","ror":"https://ror.org/01r9htc13","country_code":"BE","type":"education","lineage":["https://openalex.org/I132053463"]}],"countries":["BE"],"is_corresponding":false,"raw_author_name":"Ariane Toussaint","raw_affiliation_strings":["Bioinformatique des Ge nomes et des Re seaux, Universite Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium","Bioinformatique des Ge \u00b4nomes et des Re \u00b4seaux, Universite \u00b4Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium"],"affiliations":[{"raw_affiliation_string":"Bioinformatique des Ge nomes et des Re seaux, Universite Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium","institution_ids":["https://openalex.org/I132053463"]},{"raw_affiliation_string":"Bioinformatique des Ge \u00b4nomes et des Re \u00b4seaux, Universite \u00b4Libre de Bruxelles, Boulevard du Triomphe, 1050 Bruxelles, Belgium","institution_ids":["https://openalex.org/I132053463"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5057637115"],"corresponding_institution_ids":["https://openalex.org/I132053463"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":5.6441,"has_fulltext":true,"cited_by_count":324,"citation_normalized_percentile":{"value":0.96850866,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":97,"max":100},"biblio":{"volume":"38","issue":"suppl_1","first_page":"D57","last_page":"D61"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9994999766349792,"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":0.9994999766349792,"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9990000128746033,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.9951000213623047,"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/mobile-genetic-elements","display_name":"Mobile genetic elements","score":0.8728048801422119},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.7376399636268616},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5844342112541199},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.5428711175918579},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4698304831981659},{"id":"https://openalex.org/keywords/prophage","display_name":"Prophage","score":0.43816694617271423},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.43000897765159607},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4284188151359558},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.42122745513916016},{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.4181826412677765},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.28536534309387207}],"concepts":[{"id":"https://openalex.org/C132533263","wikidata":"https://www.wikidata.org/wiki/Q2347362","display_name":"Mobile genetic elements","level":4,"score":0.8728048801422119},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7376399636268616},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5844342112541199},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.5428711175918579},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4698304831981659},{"id":"https://openalex.org/C73445445","wikidata":"https://www.wikidata.org/wiki/Q1712327","display_name":"Prophage","level":5,"score":0.43816694617271423},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.43000897765159607},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4284188151359558},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.42122745513916016},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.4181826412677765},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.28536534309387207},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C2776441376","wikidata":"https://www.wikidata.org/wiki/Q165028","display_name":"Bacteriophage","level":4,"score":0.0},{"id":"https://openalex.org/C58226133","wikidata":"https://www.wikidata.org/wiki/Q1324199","display_name":"Pulmonary surfactant","level":2,"score":0.0},{"id":"https://openalex.org/C55352822","wikidata":"https://www.wikidata.org/wiki/Q5558978","display_name":"Gibbs isotherm","level":3,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","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/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001435","descriptor_name":"Bacteriophages","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010957","descriptor_name":"Plasmids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010957","descriptor_name":"Plasmids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D010957","descriptor_name":"Plasmids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012091","descriptor_name":"Repetitive Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012091","descriptor_name":"Repetitive Sequences, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012091","descriptor_name":"Repetitive Sequences, Nucleic Acid","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016247","descriptor_name":"Information Storage and Retrieval","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","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":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000639","qualifier_name":"trends","is_major_topic":false},{"descriptor_ui":"D020071","descriptor_name":"Interspersed Repetitive Sequences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020071","descriptor_name":"Interspersed Repetitive Sequences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020071","descriptor_name":"Interspersed Repetitive Sequences","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","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":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030541","descriptor_name":"Databases, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D030561","descriptor_name":"Databases, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":6,"locations":[{"id":"doi:10.1093/nar/gkp938","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp938","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_1/D57/11218182/gkp938.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Research","raw_type":"journal-article"},{"id":"pmid:19933762","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19933762","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:2808911","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2808911","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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"},{"id":"pmh:oai:dial.uclouvain.be:boreal:231534","is_oa":true,"landing_page_url":"http://hdl.handle.net/2078.1/231534","pdf_url":null,"source":{"id":"https://openalex.org/S4306401902","display_name":"Digital Access to Libraries (Universit\u00e9 catholique de Louvain (UCL), l'Universit\u00e9 de Namur (UNamur) and the Universit\u00e9 Saint-Louis (USL-B))","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I95674353","host_organization_name":"UCLouvain","host_organization_lineage":["https://openalex.org/I95674353"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Research, Vol. 38, no.suppl_1, p. D57-D61 (2009)","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:dipot.ulb.ac.be:2013/77456","is_oa":true,"landing_page_url":"https://dipot.ulb.ac.be/dspace/bitstream/2013/77456/4/PMC2808911.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306401063","display_name":"D\u00e9p\u00f4t institutionnel de l'Universit\u00e9 libre de Bruxelles (Universit\u00e9 Libre de Bruxelles)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I132053463","host_organization_name":"Universit\u00e9 Libre de Bruxelles","host_organization_lineage":["https://openalex.org/I132053463"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic acids research, 38 (Database issue","raw_type":"info:ulb-repo/semantics/openurl/article"},{"id":"pmh:oai:open-archive.highwire.org:nar:38/suppl_1/D57","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/38/suppl_1/D57","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/nar/gkp938","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkp938","pdf_url":"https://academic.oup.com/nar/article-pdf/38/suppl_1/D57/11218182/gkp938.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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/G2530294786","display_name":null,"funder_award_id":"PRODEX","funder_id":"https://openalex.org/F4320318240","funder_display_name":"European Space Agency"},{"id":"https://openalex.org/G3070095061","display_name":null,"funder_award_id":"Network","funder_id":"https://openalex.org/F4320318240","funder_display_name":"European Space Agency"},{"id":"https://openalex.org/G3572694259","display_name":null,"funder_award_id":"PRODEX","funder_id":"https://openalex.org/F4320321454","funder_display_name":"Belgian Federal Science Policy Office"},{"id":"https://openalex.org/G7014795694","display_name":null,"funder_award_id":"ESA-PRODEX","funder_id":"https://openalex.org/F4320321454","funder_display_name":"Belgian Federal Science Policy Office"}],"funders":[{"id":"https://openalex.org/F4320318240","display_name":"European Space Agency","ror":"https://ror.org/03wd9za21"},{"id":"https://openalex.org/F4320321454","display_name":"Belgian Federal Science Policy Office","ror":"https://ror.org/01fapfv42"},{"id":"https://openalex.org/F4320322634","display_name":"Vrije Universiteit Brussel","ror":"https://ror.org/006e5kg04"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2149559438.pdf","grobid_xml":"https://content.openalex.org/works/W2149559438.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W1583443197","https://openalex.org/W1971848423","https://openalex.org/W2014101418","https://openalex.org/W2015292449","https://openalex.org/W2027831845","https://openalex.org/W2035793410","https://openalex.org/W2045194639","https://openalex.org/W2055396457","https://openalex.org/W2057885377","https://openalex.org/W2072242527","https://openalex.org/W2103017472","https://openalex.org/W2118701853","https://openalex.org/W2124166542","https://openalex.org/W2128653811","https://openalex.org/W2131859867","https://openalex.org/W2141394464","https://openalex.org/W2147001094","https://openalex.org/W2149452073","https://openalex.org/W2154760096","https://openalex.org/W2158714788","https://openalex.org/W2161062388","https://openalex.org/W2161956102","https://openalex.org/W2402499644","https://openalex.org/W4211000692","https://openalex.org/W4212865600","https://openalex.org/W4252706339","https://openalex.org/W4285719527"],"related_works":["https://openalex.org/W1993522840","https://openalex.org/W2792556531","https://openalex.org/W3097445972","https://openalex.org/W3011753877","https://openalex.org/W2130348632","https://openalex.org/W2086607989","https://openalex.org/W2998122093","https://openalex.org/W2381277153","https://openalex.org/W4286718376","https://openalex.org/W4381330771"],"abstract_inverted_index":{"The":[0,144],"ACLAME":[1,116,140],"database":[2,150],"is":[3],"dedicated":[4,77],"to":[5,24,50,78],"the":[6,28,40,52,69,72,81,96,101,109,112,126,131,137,149,161],"collection,":[7],"analysis":[8,159],"and":[9,20,71,154],"classification":[10],"of":[11,37,56,89,111,130,160],"sequenced":[12],"mobile":[13],"genetic":[14],"elements":[15],"(MGEs,":[16],"in":[17],"particular":[18],"phages":[19],"plasmids).":[21],"In":[22],"addition":[23],"providing":[25],"information":[26],"on":[27],"MGEs":[29],"content,":[30],"classifications":[31],"are":[32,48,61],"available":[33],"at":[34],"various":[35],"levels":[36],"organization.":[38],"At":[39,80,95],"gene/protein":[41],"level,":[42,83,98],"families":[43,91],"group":[44,87],"similar":[45],"sequences":[46],"that":[47],"expected":[49],"share":[51],"same":[53],"function.":[54],"Families":[55],"four":[57],"or":[58],"more":[59],"proteins":[60],"manually":[62],"assigned":[63],"with":[64],"a":[65],"functional":[66],"annotation":[67],"using":[68],"GeneOntology":[70],"locally":[73],"developed":[74],"ontology":[75],"MeGO":[76],"MGEs.":[79,94,106],"genome":[82],"evolutionary":[84,103],"cohesive":[85],"modules":[86],"sets":[88],"protein":[90],"shared":[92],"among":[93,105],"population":[97],"networks":[99],"display":[100],"reticulate":[102],"relationships":[104],"To":[107],"increase":[108],"coverage":[110],"phage":[113],"sequence":[114],"space,":[115],"version":[117],"0.4":[118],"incorporates":[119],"760":[120],"high-quality":[121],"predicted":[122],"prophages":[123],"selected":[124],"from":[125,136],"Prophinder":[127],"database.":[128],"Most":[129],"data":[132],"can":[133],"be":[134],"downloaded":[135],"freely":[138],"accessible":[139],"web":[141],"site":[142],"(http://aclame.ulb.ac.be).":[143],"BLAST":[145],"interface":[146],"for":[147,157],"querying":[148],"has":[151],"been":[152,164],"extended":[153],"numerous":[155],"tools":[156],"in-depth":[158],"results":[162],"have":[163],"added.":[165]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":12},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":19},{"year":2022,"cited_by_count":39},{"year":2021,"cited_by_count":38},{"year":2020,"cited_by_count":35},{"year":2019,"cited_by_count":26},{"year":2018,"cited_by_count":16},{"year":2017,"cited_by_count":23},{"year":2016,"cited_by_count":21},{"year":2015,"cited_by_count":15},{"year":2014,"cited_by_count":10},{"year":2013,"cited_by_count":17},{"year":2012,"cited_by_count":20}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}