{"id":"https://openalex.org/W231803992","doi":"https://doi.org/10.1093/nar/gkn684","title":"ATGC: a database of orthologous genes from closely related prokaryotic genomes and a research platform for microevolution of prokaryotes","display_name":"ATGC: a database of orthologous genes from closely related prokaryotic genomes and a research platform for microevolution of prokaryotes","publication_year":2008,"publication_date":"2008-10-09","ids":{"openalex":"https://openalex.org/W231803992","doi":"https://doi.org/10.1093/nar/gkn684","mag":"231803992","pmid":"https://pubmed.ncbi.nlm.nih.gov/18845571"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkn684","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn684","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_1/D448/3239728/gkn684.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/37/suppl_1/D448/3239728/gkn684.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5007293969","display_name":"Pavel S. Novichkov","orcid":"https://orcid.org/0000-0002-1102-007X"},"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":true,"raw_author_name":"P. S. Novichkov","raw_affiliation_strings":["Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA. psnovichkov@lbl.gov"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, USA. psnovichkov@lbl.gov","institution_ids":["https://openalex.org/I148283060"]}]},{"author_position":"middle","author":{"id":null,"display_name":"I. Ratnere","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"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"]},{"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"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"I. Ratnere","raw_affiliation_strings":["Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, 2Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, 2Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I196679689","https://openalex.org/I148283060","https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Y. I. Wolf","orcid":null},"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"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]},{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"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":"Y. I. Wolf","raw_affiliation_strings":["Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, 2Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, 2Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I196679689","https://openalex.org/I148283060","https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"middle","author":{"id":null,"display_name":"E. V. Koonin","orcid":null},"institutions":[{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]},{"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"]},{"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":"E. V. Koonin","raw_affiliation_strings":["Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, 2Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, 2Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I196679689","https://openalex.org/I148283060","https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]},{"author_position":"last","author":{"id":null,"display_name":"I. Dubchak","orcid":null},"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"]},{"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"]},{"id":"https://openalex.org/I1299303238","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88","country_code":"US","type":"government","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238"]},{"id":"https://openalex.org/I4210109390","display_name":"National Center for Biotechnology Information","ror":"https://ror.org/02meqm098","country_code":"US","type":"facility","lineage":["https://openalex.org/I1299022934","https://openalex.org/I1299303238","https://openalex.org/I2800548410","https://openalex.org/I4210109390"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"I. Dubchak","raw_affiliation_strings":["Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, 2Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720, 2Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598 and 3National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Building 38A, 8600 Rockville Pike, Bethesda, MD 20894, USA","institution_ids":["https://openalex.org/I196679689","https://openalex.org/I148283060","https://openalex.org/I1299303238","https://openalex.org/I4210109390"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5007293969"],"corresponding_institution_ids":["https://openalex.org/I148283060"],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":0.0,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.02030043,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"37","issue":"Database","first_page":"D448","last_page":"D454"},"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9940999746322632,"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/T11269","display_name":"Algorithms and Data Compression","score":0.9764000177383423,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.7699400186538696},{"id":"https://openalex.org/keywords/microevolution","display_name":"Microevolution","score":0.605075478553772},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.4609646499156952},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4479580819606781},{"id":"https://openalex.org/keywords/refseq","display_name":"RefSeq","score":0.44521480798721313},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4335671067237854},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4332130253314972},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3256887197494507},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.2829437851905823}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7699400186538696},{"id":"https://openalex.org/C11710620","wikidata":"https://www.wikidata.org/wiki/Q680054","display_name":"Microevolution","level":3,"score":0.605075478553772},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.4609646499156952},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4479580819606781},{"id":"https://openalex.org/C151810110","wikidata":"https://www.wikidata.org/wiki/Q7307074","display_name":"RefSeq","level":4,"score":0.44521480798721313},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4335671067237854},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4332130253314972},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3256887197494507},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.2829437851905823},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.0},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"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":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019766","descriptor_name":"Genes, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019766","descriptor_name":"Genes, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019766","descriptor_name":"Genes, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020745","descriptor_name":"Genome, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020745","descriptor_name":"Genome, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020745","descriptor_name":"Genome, Archaeal","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D026801","descriptor_name":"Synteny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D026801","descriptor_name":"Synteny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D026801","descriptor_name":"Synteny","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}],"locations_count":8,"locations":[{"id":"doi:10.1093/nar/gkn684","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn684","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_1/D448/3239728/gkn684.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:18845571","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/18845571","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:info:ark/67531/metadc831820","is_oa":false,"landing_page_url":"https://digital.library.unt.edu/ark:/67531/metadc831820/","pdf_url":null,"source":{"id":"https://openalex.org/S4306400792","display_name":"University of North Texas Digital Library (University of North Texas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I123534392","host_organization_name":"University of North Texas","host_organization_lineage":["https://openalex.org/I123534392"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal Name: Nucleic Acids Res.; Journal Volume: 37; Journal Issue: Database","raw_type":"Article"},{"id":"pmh:oai:escholarship.org/ark:/13030/qt44b7w7vh","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/44b7w7vh","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":"","raw_type":"article"},{"id":"pmh:oai:osti.gov:1012472","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1012472","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:2686458","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2686458","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Nucleic Acids Res","raw_type":"Text"},{"id":"pmh:qt44b7w7vh","is_oa":false,"landing_page_url":"http://www.escholarship.org/uc/item/44b7w7vh","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":"Novichkov, Pavel S.(2009). ATGC: a database of orthologous genes from closely related prokaryotic genomes and a research platform for microevolution of prokaryotes. Lawrence Berkeley National Laboratory. Lawrence Berkeley National Laboratory: Lawrence Berkeley National Laboratory. Retrieved from: http://www.escholarship.org/uc/item/44b7w7vh","raw_type":"article"},{"id":"mag:231803992","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/44b7w7vh.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S2764971142","display_name":"Lawrence Berkeley National Laboratory","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4320800592","host_organization_name":"United States Department of Energy","host_organization_lineage":["https://openalex.org/P4320800592"],"host_organization_lineage_names":["United States Department of Energy"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":"Lawrence Berkeley National Laboratory","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/nar/gkn684","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkn684","pdf_url":"https://academic.oup.com/nar/article-pdf/37/suppl_1/D448/3239728/gkn684.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/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/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/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/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/G7368046788","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/G7538560101","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8483344784","display_name":null,"funder_award_id":"DE-AC02-05CH11231","funder_id":"https://openalex.org/F4320306085","funder_display_name":"U.S. Department of Health and Human Services"},{"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/F4320306085","display_name":"U.S. Department of Health and Human Services","ror":"https://ror.org/033jnv181"},{"id":"https://openalex.org/F4320316170","display_name":"Joint Genome Institute","ror":"https://ror.org/04xm1d337"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337372","display_name":"U.S. National Library of Medicine","ror":"https://ror.org/0060t0j89"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W231803992.pdf","grobid_xml":"https://content.openalex.org/works/W231803992.grobid-xml"},"referenced_works_count":22,"referenced_works":["https://openalex.org/W1519266993","https://openalex.org/W1542595575","https://openalex.org/W1958476169","https://openalex.org/W1988925586","https://openalex.org/W1990453950","https://openalex.org/W2000818024","https://openalex.org/W2008856488","https://openalex.org/W2020836030","https://openalex.org/W2072550492","https://openalex.org/W2090385974","https://openalex.org/W2119632499","https://openalex.org/W2124177389","https://openalex.org/W2124681451","https://openalex.org/W2132926880","https://openalex.org/W2136252135","https://openalex.org/W2145100181","https://openalex.org/W2158350566","https://openalex.org/W2161762698","https://openalex.org/W2169929748","https://openalex.org/W2915868289","https://openalex.org/W4236236547","https://openalex.org/W4239678514"],"related_works":["https://openalex.org/W1992159722","https://openalex.org/W2532368742","https://openalex.org/W2053501576","https://openalex.org/W2981913463","https://openalex.org/W3083124843","https://openalex.org/W2179575365","https://openalex.org/W2903153989","https://openalex.org/W2131414388","https://openalex.org/W1956454952","https://openalex.org/W1579517458","https://openalex.org/W2726257503","https://openalex.org/W2979598477","https://openalex.org/W3109433977","https://openalex.org/W2002833133","https://openalex.org/W2953462324","https://openalex.org/W2136095103","https://openalex.org/W2085167600","https://openalex.org/W2896596996","https://openalex.org/W2005110747","https://openalex.org/W3115101262"],"abstract_inverted_index":{"The":[0,118,166,180],"database":[1,119,168,181],"of":[2,9,13,27,41,47,57,64,72,87,95,104,110,146,150,158,176],"Alignable":[3],"Tight":[4],"Genomic":[5],"Clusters":[6],"(ATGCs)":[7],"consists":[8],"closely":[10],"related":[11],"genomes":[12,111],"archaea":[14],"and":[15,17,60,84,115,127,138,160,164,193],"bacteria,":[16],"is":[18,34,51,112,182,194],"a":[19,28,35,73,107,113],"resource":[20],"for":[21,38],"research":[22,75],"into":[23],"prokaryotic":[24],"microevolution.":[25],"Construction":[26],"data":[29,141],"set":[30,109],"with":[31,79],"appropriate":[32,136],"characteristics":[33],"major":[36],"hurdle":[37],"this":[39],"type":[40],"studies.":[42],"With":[43],"the":[44,55,58,65,70,82,90,177,185],"current":[45],"rate":[46],"genome":[48,67],"sequencing,":[49],"it":[50],"difficult":[52],"to":[53,61,81,131],"follow":[54],"progress":[56],"field":[59],"determine":[62],"which":[63],"available":[66,196],"sets":[68],"meet":[69],"requirements":[71],"given":[74],"project,":[76],"in":[77],"particular,":[78],"respect":[80],"minimum":[83],"maximum":[85],"levels":[86],"similarity":[88],"between":[89],"included":[91],"genomes.":[92],"Additionally,":[93],"extraction":[94],"specific":[96],"content,":[97],"such":[98,142],"as":[99,143],"genomic":[100],"alignments":[101,145],"or":[102],"families":[103],"orthologs,":[105],"from":[106],"selected":[108],"complicated":[114],"time-consuming":[116],"process.":[117],"addresses":[120],"these":[121],"problems":[122],"by":[123,184],"providing":[124],"an":[125],"intuitive":[126],"efficient":[128],"web":[129],"interface":[130],"browse":[132],"precomputed":[133],"ATGCs,":[134],"select":[135],"ones":[137],"access":[139],"ATGC-derived":[140],"multiple":[144],"orthologous":[147],"proteins,":[148],"matrices":[149],"pairwise":[151],"intergenomic":[152],"distances":[153],"based":[154],"on":[155],"genome-wide":[156],"analysis":[157],"synonymous":[159],"nonsynonymous":[161],"substitution":[162],"rates":[163],"others.":[165],"ATGC":[167],"will":[169],"be":[170],"regularly":[171],"updated":[172],"following":[173],"new":[174],"releases":[175],"NCBI":[178],"RefSeq.":[179],"hosted":[183],"Genomics":[186],"Division":[187],"at":[188,197],"Lawrence":[189],"Berkeley":[190],"National":[191],"laboratory":[192],"publicly":[195],"http://atgc.lbl.gov.":[198]},"counts_by_year":[{"year":2022,"cited_by_count":1}],"updated_date":"2026-07-09T07:52:08.696243","created_date":"2025-10-10T00:00:00"}
