{"id":"https://openalex.org/W2387926211","doi":"https://doi.org/10.1093/nar/gkw394","title":"Comparative transcriptomics across the prokaryotic tree of life","display_name":"Comparative transcriptomics across the prokaryotic tree of life","publication_year":2016,"publication_date":"2016-05-06","ids":{"openalex":"https://openalex.org/W2387926211","doi":"https://doi.org/10.1093/nar/gkw394","mag":"2387926211","pmid":"https://pubmed.ncbi.nlm.nih.gov/27154273"},"language":"en","primary_location":{"id":"doi:10.1093/nar/gkw394","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw394","pdf_url":"https://academic.oup.com/nar/article-pdf/44/W1/W46/18788328/gkw394.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/44/W1/W46/18788328/gkw394.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5083324690","display_name":"Ofir Cohen","orcid":"https://orcid.org/0000-0002-0043-6838"},"institutions":[{"id":"https://openalex.org/I107606265","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I107606265"]},{"id":"https://openalex.org/I53964585","display_name":"Weizmann Institute of Science","ror":"https://ror.org/0316ej306","country_code":"IL","type":"education","lineage":["https://openalex.org/I53964585"]}],"countries":["IL","US"],"is_corresponding":false,"raw_author_name":"Ofir Cohen","raw_affiliation_strings":["Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA","institution_ids":["https://openalex.org/I53964585","https://openalex.org/I107606265"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052646987","display_name":"Shany Doron","orcid":"https://orcid.org/0000-0002-8392-6110"},"institutions":[{"id":"https://openalex.org/I53964585","display_name":"Weizmann Institute of Science","ror":"https://ror.org/0316ej306","country_code":"IL","type":"education","lineage":["https://openalex.org/I53964585"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Shany Doron","raw_affiliation_strings":["Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel","institution_ids":["https://openalex.org/I53964585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071318134","display_name":"Omri Wurtzel","orcid":"https://orcid.org/0000-0002-6865-5914"},"institutions":[{"id":"https://openalex.org/I4210157710","display_name":"Whitehead Institute for Biomedical Research","ror":"https://ror.org/04vqm6w82","country_code":"US","type":"facility","lineage":["https://openalex.org/I4210157710","https://openalex.org/I63966007"]},{"id":"https://openalex.org/I53964585","display_name":"Weizmann Institute of Science","ror":"https://ror.org/0316ej306","country_code":"IL","type":"education","lineage":["https://openalex.org/I53964585"]}],"countries":["IL","US"],"is_corresponding":false,"raw_author_name":"Omri Wurtzel","raw_affiliation_strings":["Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA","institution_ids":["https://openalex.org/I53964585","https://openalex.org/I4210157710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016308721","display_name":"Daniel Dar","orcid":"https://orcid.org/0000-0002-6650-5488"},"institutions":[{"id":"https://openalex.org/I53964585","display_name":"Weizmann Institute of Science","ror":"https://ror.org/0316ej306","country_code":"IL","type":"education","lineage":["https://openalex.org/I53964585"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Daniel Dar","raw_affiliation_strings":["Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel","institution_ids":["https://openalex.org/I53964585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001329336","display_name":"Sarit Edelheit","orcid":"https://orcid.org/0000-0003-4670-185X"},"institutions":[{"id":"https://openalex.org/I53964585","display_name":"Weizmann Institute of Science","ror":"https://ror.org/0316ej306","country_code":"IL","type":"education","lineage":["https://openalex.org/I53964585"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Sarit Edelheit","raw_affiliation_strings":["Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel","institution_ids":["https://openalex.org/I53964585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5075812341","display_name":"Iris Karunker","orcid":null},"institutions":[{"id":"https://openalex.org/I53964585","display_name":"Weizmann Institute of Science","ror":"https://ror.org/0316ej306","country_code":"IL","type":"education","lineage":["https://openalex.org/I53964585"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Iris Karunker","raw_affiliation_strings":["Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel","institution_ids":["https://openalex.org/I53964585"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017147813","display_name":"Eran Mick","orcid":"https://orcid.org/0000-0002-7299-808X"},"institutions":[{"id":"https://openalex.org/I53964585","display_name":"Weizmann Institute of Science","ror":"https://ror.org/0316ej306","country_code":"IL","type":"education","lineage":["https://openalex.org/I53964585"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Eran Mick","raw_affiliation_strings":["Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA","institution_ids":["https://openalex.org/I53964585"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5024718393","display_name":"Rotem Sorek","orcid":"https://orcid.org/0000-0002-3872-4982"},"institutions":[{"id":"https://openalex.org/I53964585","display_name":"Weizmann Institute of Science","ror":"https://ror.org/0316ej306","country_code":"IL","type":"education","lineage":["https://openalex.org/I53964585"]}],"countries":["IL"],"is_corresponding":false,"raw_author_name":"Rotem Sorek","raw_affiliation_strings":["Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel rotem.sorek@weizmann.ac.il"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel rotem.sorek@weizmann.ac.il","institution_ids":["https://openalex.org/I53964585"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":3630,"currency":"USD","value_usd":3630},"apc_paid":{"value":3630,"currency":"USD","value_usd":3630},"fwci":4.613,"has_fulltext":false,"cited_by_count":53,"citation_normalized_percentile":{"value":0.95124826,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"44","issue":"W1","first_page":"W46","last_page":"W53"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9993000030517578,"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":0.9993000030517578,"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":0.9990000128746033,"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/T11482","display_name":"RNA modifications and cancer","score":0.9970999956130981,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.9632860422134399},{"id":"https://openalex.org/keywords/tree-of-life","display_name":"Tree of life (biology)","score":0.6680951118469238},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.5571107864379883},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.48404020071029663},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.46561479568481445},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.41015857458114624},{"id":"https://openalex.org/keywords/phylogenetics","display_name":"Phylogenetics","score":0.3591156601905823},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.34375813603401184},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.21346652507781982},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.15429821610450745}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.9632860422134399},{"id":"https://openalex.org/C124388736","wikidata":"https://www.wikidata.org/wiki/Q3247497","display_name":"Tree of life (biology)","level":4,"score":0.6680951118469238},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.5571107864379883},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.48404020071029663},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.46561479568481445},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.41015857458114624},{"id":"https://openalex.org/C90132467","wikidata":"https://www.wikidata.org/wiki/Q171184","display_name":"Phylogenetics","level":3,"score":0.3591156601905823},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.34375813603401184},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.21346652507781982},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.15429821610450745},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001105","descriptor_name":"Archaea","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001419","descriptor_name":"Bacteria","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002874","descriptor_name":"Chromosome Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D010802","descriptor_name":"Phylogeny","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012329","descriptor_name":"RNA, Bacterial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":true},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017423","descriptor_name":"Sequence Analysis, RNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019642","descriptor_name":"RNA, Archaeal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019642","descriptor_name":"RNA, Archaeal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019642","descriptor_name":"RNA, Archaeal","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020121","descriptor_name":"5' Untranslated Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020121","descriptor_name":"5' Untranslated Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020121","descriptor_name":"5' Untranslated Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058928","descriptor_name":"Riboswitch","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059467","descriptor_name":"Transcriptome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1093/nar/gkw394","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw394","pdf_url":"https://academic.oup.com/nar/article-pdf/44/W1/W46/18788328/gkw394.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:27154273","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27154273","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:dash.harvard.edu:1/29002615","is_oa":true,"landing_page_url":"http://nrs.harvard.edu/urn-3:HUL.InstRepos:29002615","pdf_url":null,"source":{"id":"https://openalex.org/S4306401540","display_name":"Digital Access to Scholarship at Harvard (DASH) (Harvard University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I136199984","host_organization_name":"Harvard University","host_organization_lineage":["https://openalex.org/I136199984"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Journal Article"},{"id":"pmh:oai:europepmc.org:3952914","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4987935","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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:open-archive.highwire.org:nar:44/W1/W46","is_oa":false,"landing_page_url":"http://nar.oxfordjournals.org/cgi/content/short/44/W1/W46","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/gkw394","is_oa":true,"landing_page_url":"https://doi.org/10.1093/nar/gkw394","pdf_url":"https://academic.oup.com/nar/article-pdf/44/W1/W46/18788328/gkw394.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":[{"display_name":"Life in Land","score":0.7300000190734863,"id":"https://metadata.un.org/sdg/15"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2387926211.pdf"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W1968698890","https://openalex.org/W1969225831","https://openalex.org/W1972139720","https://openalex.org/W1975741829","https://openalex.org/W1979622547","https://openalex.org/W1987139333","https://openalex.org/W2000488116","https://openalex.org/W2004494938","https://openalex.org/W2022552842","https://openalex.org/W2031611770","https://openalex.org/W2054522148","https://openalex.org/W2056253073","https://openalex.org/W2060095084","https://openalex.org/W2062640511","https://openalex.org/W2062896692","https://openalex.org/W2063327774","https://openalex.org/W2067051926","https://openalex.org/W2068242488","https://openalex.org/W2070063001","https://openalex.org/W2072084446","https://openalex.org/W2073399561","https://openalex.org/W2076937215","https://openalex.org/W2078739770","https://openalex.org/W2082768551","https://openalex.org/W2085967390","https://openalex.org/W2097485877","https://openalex.org/W2106237263","https://openalex.org/W2108076261","https://openalex.org/W2108230379","https://openalex.org/W2110728874","https://openalex.org/W2114998496","https://openalex.org/W2116373379","https://openalex.org/W2121918723","https://openalex.org/W2122914162","https://openalex.org/W2127044810","https://openalex.org/W2131417813","https://openalex.org/W2134412337","https://openalex.org/W2149114938","https://openalex.org/W2153544866","https://openalex.org/W2153992812","https://openalex.org/W2155606054","https://openalex.org/W2161633452","https://openalex.org/W2161666385","https://openalex.org/W2165335121","https://openalex.org/W2245970407","https://openalex.org/W2315132400"],"related_works":["https://openalex.org/W2001721767","https://openalex.org/W2595095380","https://openalex.org/W2207720026","https://openalex.org/W2022569902","https://openalex.org/W1766380752","https://openalex.org/W4386987819","https://openalex.org/W2146536773","https://openalex.org/W2011419188","https://openalex.org/W3195926419","https://openalex.org/W1923231248"],"abstract_inverted_index":{"Whole-transcriptome":[0],"sequencing":[1],"studies":[2,176],"from":[3],"recent":[4],"years":[5],"revealed":[6],"an":[7],"unexpected":[8],"complexity":[9],"in":[10,37,81,122],"transcriptomes":[11],"of":[12,31,34,46,74,103,116,177],"bacteria":[13,104],"and":[14,22,87,105,143,160],"archaea,":[15],"including":[16],"abundant":[17],"non-coding":[18,35,180],"RNAs,":[19],"cis-antisense":[20],"transcription":[21],"regulatory":[23,148],"untranslated":[24],"regions":[25],"(UTRs).":[26],"Understanding":[27],"the":[28,32,56,71,117,178],"functional":[29],"relevance":[30],"plethora":[33],"RNAs":[36,48],"a":[38,153,172],"given":[39],"organism":[40],"is":[41,126,167],"challenging,":[42],"especially":[43],"since":[44],"some":[45],"these":[47],"were":[49,108],"attributed":[50],"to":[51,139,157],"'transcriptional":[52],"noise'.":[53],"To":[54],"allow":[55],"search":[57],"for":[58,67,174],"conserved":[59],"transcriptomic":[60],"elements":[61],"we":[62],"produced":[63],"comparative":[64,118,175],"transcriptome":[65,77,94,156],"maps":[66,78],"multiple":[68],"species":[69],"across":[70,135],"microbial":[72,163,179],"tree":[73],"life.":[75],"These":[76],"are":[79],"detailed":[80],"annotations,":[82],"comparable":[83],"by":[84,89,128],"gene":[85],"families,":[86],"BLAST-searchable":[88],"user":[90],"provided":[91],"sequences.":[92],"Our":[93,150],"collection":[95],"includes":[96],"18":[97],"model":[98],"organisms":[99],"spanning":[100],"10":[101],"phyla/subphyla":[102],"archaea":[106],"that":[107],"sequenced":[109],"using":[110],"standardized":[111,154],"RNA-seq":[112],"methods.":[113],"The":[114,165],"utility":[115],"approach,":[119],"as":[120],"implemented":[121],"our":[123],"web":[124],"server,":[125],"demonstrated":[127],"highlighting":[129],"genes":[130],"with":[131],"exceptionally":[132],"long":[133],"5'UTRs":[134],"species,":[136],"which":[137],"correspond":[138],"many":[140],"known":[141],"riboswitches":[142],"further":[144],"suggest":[145],"novel":[146],"putative":[147],"elements.":[149],"study":[151],"provides":[152],"reference":[155],"major":[158],"clinically":[159],"environmentally":[161],"important":[162],"phyla.":[164],"viewer":[166],"available":[168],"at":[169],"http://exploration.weizmann.ac.il/TCOL,":[170],"setting":[171],"framework":[173],"genome.":[181]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":14},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":3}],"updated_date":"2026-07-02T09:51:11.867554","created_date":"2025-10-10T00:00:00"}
