{"id":"https://openalex.org/W3012873767","doi":"https://doi.org/10.1371/journal.pcbi.1007583","title":"An Evolutionary Trace method defines functionally important bases and sites common to RNA families","display_name":"An Evolutionary Trace method defines functionally important bases and sites common to RNA families","publication_year":2020,"publication_date":"2020-03-24","ids":{"openalex":"https://openalex.org/W3012873767","doi":"https://doi.org/10.1371/journal.pcbi.1007583","mag":"3012873767","pmid":"https://pubmed.ncbi.nlm.nih.gov/32208421"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1007583","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007583","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1007583&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1007583&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5060958994","display_name":"Ilya B. Novikov","orcid":"https://orcid.org/0000-0001-5096-6864"},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ilya B. Novikov","raw_affiliation_strings":["Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, Texas, United States of America"],"raw_orcid":"https://orcid.org/0000-0001-5096-6864","affiliations":[{"raw_affiliation_string":"Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I181547552"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5046296124","display_name":"Angela D. Wilkins","orcid":null},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Angela D. Wilkins","raw_affiliation_strings":["Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, United States of America"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I181547552"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023680746","display_name":"Olivier Lichtarge","orcid":"https://orcid.org/0000-0003-4057-7122"},"institutions":[{"id":"https://openalex.org/I181547552","display_name":"Baylor College of Medicine","ror":"https://ror.org/02pttbw34","country_code":"US","type":"education","lineage":["https://openalex.org/I181547552","https://openalex.org/I2801539370"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Olivier Lichtarge","raw_affiliation_strings":["Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, United States of America"],"raw_orcid":"https://orcid.org/0000-0003-4057-7122","affiliations":[{"raw_affiliation_string":"Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, United States of America","institution_ids":["https://openalex.org/I181547552"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5023680746"],"corresponding_institution_ids":["https://openalex.org/I181547552"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.0836,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.43191987,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"16","issue":"3","first_page":"e1007583","last_page":"e1007583"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":1.0,"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":0.9998999834060669,"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/T10604","display_name":"RNA Research and Splicing","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"}}],"keywords":[{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.65252685546875},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.6501811742782593},{"id":"https://openalex.org/keywords/ribosome","display_name":"Ribosome","score":0.6355481147766113},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6306118369102478},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5332367420196533},{"id":"https://openalex.org/keywords/nucleic-acid-structure","display_name":"Nucleic acid structure","score":0.4881366193294525},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"Non-coding RNA","score":0.48461589217185974},{"id":"https://openalex.org/keywords/functional-divergence","display_name":"Functional divergence","score":0.4833261966705322},{"id":"https://openalex.org/keywords/evolutionary-biology","display_name":"Evolutionary biology","score":0.4418129324913025},{"id":"https://openalex.org/keywords/phylogenetic-tree","display_name":"Phylogenetic tree","score":0.4284267723560333},{"id":"https://openalex.org/keywords/conserved-sequence","display_name":"Conserved sequence","score":0.41973528265953064},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.4151361584663391},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.36136478185653687},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.1520676612854004},{"id":"https://openalex.org/keywords/gene-family","display_name":"Gene family","score":0.1316407322883606}],"concepts":[{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.65252685546875},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.6501811742782593},{"id":"https://openalex.org/C88478588","wikidata":"https://www.wikidata.org/wiki/Q42244","display_name":"Ribosome","level":4,"score":0.6355481147766113},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6306118369102478},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5332367420196533},{"id":"https://openalex.org/C126142528","wikidata":"https://www.wikidata.org/wiki/Q3771876","display_name":"Nucleic acid structure","level":4,"score":0.4881366193294525},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.48461589217185974},{"id":"https://openalex.org/C103077935","wikidata":"https://www.wikidata.org/wiki/Q5508811","display_name":"Functional divergence","level":5,"score":0.4833261966705322},{"id":"https://openalex.org/C78458016","wikidata":"https://www.wikidata.org/wiki/Q840400","display_name":"Evolutionary biology","level":1,"score":0.4418129324913025},{"id":"https://openalex.org/C193252679","wikidata":"https://www.wikidata.org/wiki/Q242125","display_name":"Phylogenetic tree","level":3,"score":0.4284267723560333},{"id":"https://openalex.org/C199216141","wikidata":"https://www.wikidata.org/wiki/Q4995178","display_name":"Conserved sequence","level":4,"score":0.41973528265953064},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.4151361584663391},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.36136478185653687},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.1520676612854004},{"id":"https://openalex.org/C5911399","wikidata":"https://www.wikidata.org/wiki/Q2278983","display_name":"Gene family","level":4,"score":0.1316407322883606}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005075","descriptor_name":"Biological Evolution","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009711","descriptor_name":"Nucleotides","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":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017124","descriptor_name":"Conserved Sequence","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":false},{"descriptor_ui":"D019143","descriptor_name":"Evolution, Molecular","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":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":"Q000379","qualifier_name":"methods","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":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D022661","descriptor_name":"RNA, Untranslated","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1371/journal.pcbi.1007583","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007583","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1007583&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:32208421","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32208421","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:d19255fad83e4b10a3cfcdb700d83338","is_oa":true,"landing_page_url":"https://doaj.org/article/d19255fad83e4b10a3cfcdb700d83338","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 16, Iss 3, p e1007583 (2020)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:6065367","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7092961","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/12025005","is_oa":true,"landing_page_url":"https://figshare.com/articles/dataset/An_Evolutionary_Trace_method_defines_functionally_important_bases_and_sites_common_to_RNA_families/12025005","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"Dataset"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1007583","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1007583","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1007583&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3012873767.pdf","grobid_xml":"https://content.openalex.org/works/W3012873767.grobid-xml"},"referenced_works_count":64,"referenced_works":["https://openalex.org/W18486434","https://openalex.org/W34482235","https://openalex.org/W1891814836","https://openalex.org/W1931081986","https://openalex.org/W1964008410","https://openalex.org/W1983167449","https://openalex.org/W1985956065","https://openalex.org/W1988409793","https://openalex.org/W1990476811","https://openalex.org/W1992358035","https://openalex.org/W2007978853","https://openalex.org/W2014534727","https://openalex.org/W2019713686","https://openalex.org/W2022605680","https://openalex.org/W2023206235","https://openalex.org/W2024620705","https://openalex.org/W2027036222","https://openalex.org/W2028454407","https://openalex.org/W2035783320","https://openalex.org/W2038473742","https://openalex.org/W2042103288","https://openalex.org/W2044758458","https://openalex.org/W2051188149","https://openalex.org/W2051646379","https://openalex.org/W2056589536","https://openalex.org/W2065666222","https://openalex.org/W2066712943","https://openalex.org/W2068725534","https://openalex.org/W2070777085","https://openalex.org/W2073111529","https://openalex.org/W2082583578","https://openalex.org/W2087377443","https://openalex.org/W2103724598","https://openalex.org/W2107999292","https://openalex.org/W2116168949","https://openalex.org/W2117325595","https://openalex.org/W2119718783","https://openalex.org/W2120664009","https://openalex.org/W2122695112","https://openalex.org/W2124050695","https://openalex.org/W2124904677","https://openalex.org/W2127296617","https://openalex.org/W2130388134","https://openalex.org/W2137844204","https://openalex.org/W2137991504","https://openalex.org/W2141157874","https://openalex.org/W2142056356","https://openalex.org/W2142157992","https://openalex.org/W2143654339","https://openalex.org/W2145191876","https://openalex.org/W2152425069","https://openalex.org/W2158772300","https://openalex.org/W2161888332","https://openalex.org/W2162574056","https://openalex.org/W2164941383","https://openalex.org/W2165869336","https://openalex.org/W2262355153","https://openalex.org/W2264446896","https://openalex.org/W2342307854","https://openalex.org/W2376573086","https://openalex.org/W2400250419","https://openalex.org/W2554065905","https://openalex.org/W2554722417","https://openalex.org/W2766848373"],"related_works":["https://openalex.org/W1499159835","https://openalex.org/W1993362141","https://openalex.org/W4388294475","https://openalex.org/W1968948161","https://openalex.org/W1598137697","https://openalex.org/W2801769920","https://openalex.org/W3031237064","https://openalex.org/W2130150170","https://openalex.org/W2051872662","https://openalex.org/W1012505535"],"abstract_inverted_index":{"Functional":[0],"non-coding":[1],"(fnc)RNAs":[2],"are":[3,234],"nucleotide":[4,203],"sequences":[5,173],"of":[6,43,72,80,133,140,147,153,186,192,215,223,248],"varied":[7],"lengths,":[8],"structures,":[9,179],"and":[10,17,21,23,26,45,62,87,106,121,125,174,180,199,232,239,253],"mechanisms":[11],"that":[12,226],"ubiquitously":[13],"influence":[14],"gene":[15],"expression":[16],"translation,":[18],"genome":[19],"stability":[20],"dynamics,":[22],"human":[24],"health":[25],"disease.":[27],"Here,":[28],"to":[29,38,74,93,213],"shed":[30],"light":[31],"on":[32,65,183],"their":[33],"functional":[34,82,115,141,158,169,175,201],"determinants,":[35],"we":[36,194],"seek":[37],"exploit":[39],"the":[40,54,85,100,130,138,184,206,249],"evolutionary":[41,89,154,227],"record":[42],"variation":[44],"divergence":[46],"read":[47],"from":[48],"sequence":[49],"comparisons.":[50],"The":[51],"approach":[52],"follows":[53],"phylogenetic":[55,164],"Evolutionary":[56],"Trace":[57],"(ET)":[58],"paradigm,":[59],"first":[60],"developed":[61],"extensively":[63],"validated":[64],"proteins.":[66,240],"We":[67],"assigned":[68],"a":[69,78,145,258],"relative":[70],"rank":[71],"importance":[73],"every":[75],"base":[76],"in":[77,96,104,162,171,177,205,217,236],"study":[79],"1070":[81],"RNAs,":[83],"including":[84],"ribosome,":[86],"observed":[88],"patterns":[90],"strikingly":[91],"similar":[92,235],"those":[94],"seen":[95],"proteins,":[97],"namely,":[98],"(1)":[99],"top-ranked":[101],"bases":[102],"clustered":[103],"secondary":[105],"tertiary":[107],"structures.":[108],"(2)":[109],"In":[110],"turn,":[111],"these":[112,134],"clusters":[113,135,204],"mapped":[114],"regions":[116],"for":[117],"catalysis,":[118],"binding":[119],"proteins":[120],"drugs,":[122],"post-transcriptional":[123],"modification,":[124],"deleterious":[126],"mutations.":[127],"(3)":[128],"Moreover,":[129],"quantitative":[131],"quality":[132],"correlated":[136],"with":[137],"identification":[139],"regions.":[142],"(4)":[143],"As":[144,190],"result":[146],"this":[148,221],"correlation,":[149],"smoother":[150],"structural":[151],"distributions":[152],"important":[155],"nucleotides":[156],"improved":[157],"site":[159],"predictions.":[160],"Thus,":[161],"practice,":[163],"analysis":[165],"can":[166],"broadly":[167,211],"identify":[168],"determinants":[170],"RNA":[172,178,187,238,241],"sites":[176],"reveal":[181],"details":[182],"basis":[185],"molecular":[188],"functions.":[189],"example":[191],"application,":[193],"report":[195],"several":[196],"previously":[197],"undocumented":[198],"potentially":[200],"ET":[202,224,242,250],"ribosome.":[207],"This":[208],"work":[209],"is":[210,243],"relevant":[212],"studies":[214],"structure-function":[216],"ribonucleic":[218],"acids.":[219],"Additionally,":[220],"generalization":[222],"shows":[225],"constraints":[228],"among":[229],"sequence,":[230],"structure,":[231],"function":[233],"structured":[237],"currently":[244],"available":[245,256],"as":[246,257],"part":[247],"command-line":[251],"package,":[252],"will":[254],"be":[255],"web-server.":[259]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1}],"updated_date":"2026-01-13T01:12:25.745995","created_date":"2025-10-10T00:00:00"}