{"id":"https://openalex.org/W1987701162","doi":"https://doi.org/10.1109/tcbb.2014.2366758","title":"A Machine Learning Approach for Accurate Annotation of Noncoding RNAs","display_name":"A Machine Learning Approach for Accurate Annotation of Noncoding RNAs","publication_year":2014,"publication_date":"2014-11-04","ids":{"openalex":"https://openalex.org/W1987701162","doi":"https://doi.org/10.1109/tcbb.2014.2366758","mag":"1987701162","pmid":"https://pubmed.ncbi.nlm.nih.gov/26357266"},"language":"en","primary_location":{"id":"doi:10.1109/tcbb.2014.2366758","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2366758","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4726481","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5017041136","display_name":"Yinglei Song","orcid":"https://orcid.org/0000-0003-3982-7657"},"institutions":[{"id":"https://openalex.org/I4210096899","display_name":"Jiangsu University of Science and Technology","ror":"https://ror.org/00tyjp878","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210096899"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yinglei Song","raw_affiliation_strings":["School of Electronics and Information Science, Jiangsu University of Science and Technology Zhenjiang, Jiangsu, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Electronics and Information Science, Jiangsu University of Science and Technology Zhenjiang, Jiangsu, China","institution_ids":["https://openalex.org/I4210096899"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115590267","display_name":"Chunmei Liu","orcid":"https://orcid.org/0000-0001-9560-3709"},"institutions":[{"id":"https://openalex.org/I137853757","display_name":"Howard University","ror":"https://ror.org/05gt1vc06","country_code":"US","type":"education","lineage":["https://openalex.org/I137853757"]},{"id":"https://openalex.org/I201448701","display_name":"University of Washington","ror":"https://ror.org/00cvxb145","country_code":"US","type":"education","lineage":["https://openalex.org/I201448701"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Chunmei Liu","raw_affiliation_strings":["Department of Systems and Computer Sciences, Howard University, D.C","Department of Systems and Computer Sciences, Howard University, Washington, D.C.#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Systems and Computer Sciences, Howard University, D.C","institution_ids":["https://openalex.org/I137853757"]},{"raw_affiliation_string":"Department of Systems and Computer Sciences, Howard University, Washington, D.C.#TAB#","institution_ids":["https://openalex.org/I201448701"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100376364","display_name":"Zhi Wang","orcid":"https://orcid.org/0000-0001-6083-9068"},"institutions":[{"id":"https://openalex.org/I4210096899","display_name":"Jiangsu University of Science and Technology","ror":"https://ror.org/00tyjp878","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210096899"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhi Wang","raw_affiliation_strings":["School of Computer Science and Engineering, Jiangsu University of Science and Technology Zhenjiang, Jiangsu, China","School of Computer Science and Engineering, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Engineering, Jiangsu University of Science and Technology Zhenjiang, Jiangsu, China","institution_ids":["https://openalex.org/I4210096899"]},{"raw_affiliation_string":"School of Computer Science and Engineering, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, China","institution_ids":["https://openalex.org/I4210096899"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":2645,"currency":"USD","value_usd":2645},"apc_paid":null,"fwci":0.6493,"has_fulltext":false,"cited_by_count":10,"citation_normalized_percentile":{"value":0.66261042,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"12","issue":"3","first_page":"551","last_page":"559"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","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"}},"topics":[{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9986000061035156,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9973999857902527,"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/genome","display_name":"Genome","score":0.6628435850143433},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"Non-coding RNA","score":0.6215384006500244},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5731694102287292},{"id":"https://openalex.org/keywords/gene-annotation","display_name":"Gene Annotation","score":0.4995877742767334},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.47969409823417664},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.47846198081970215},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.4622042179107666},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.4601486325263977},{"id":"https://openalex.org/keywords/annotation","display_name":"Annotation","score":0.43225061893463135},{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.41927987337112427},{"id":"https://openalex.org/keywords/feature-vector","display_name":"Feature vector","score":0.4155729413032532},{"id":"https://openalex.org/keywords/nucleic-acid-secondary-structure","display_name":"Nucleic acid secondary structure","score":0.4151782989501953},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3867897093296051},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.38592803478240967},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.37311041355133057},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.29009270668029785}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6628435850143433},{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.6215384006500244},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5731694102287292},{"id":"https://openalex.org/C2908923196","wikidata":"https://www.wikidata.org/wiki/Q5205742","display_name":"Gene Annotation","level":4,"score":0.4995877742767334},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.47969409823417664},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.47846198081970215},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.4622042179107666},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.4601486325263977},{"id":"https://openalex.org/C2776321320","wikidata":"https://www.wikidata.org/wiki/Q857525","display_name":"Annotation","level":2,"score":0.43225061893463135},{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.41927987337112427},{"id":"https://openalex.org/C83665646","wikidata":"https://www.wikidata.org/wiki/Q42139305","display_name":"Feature vector","level":2,"score":0.4155729413032532},{"id":"https://openalex.org/C85468374","wikidata":"https://www.wikidata.org/wiki/Q6589957","display_name":"Nucleic acid secondary structure","level":4,"score":0.4151782989501953},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3867897093296051},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.38592803478240967},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.37311041355133057},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.29009270668029785},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","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":"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":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1109/tcbb.2014.2366758","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tcbb.2014.2366758","pdf_url":null,"source":{"id":"https://openalex.org/S36029991","display_name":"IEEE Transactions on Computational Biology and Bioinformatics","issn_l":"1545-5963","issn":["1545-5963","1557-9964","2374-0043","2998-4165"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE/ACM Transactions on Computational Biology and Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26357266","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26357266","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":"IEEE/ACM transactions on computational biology and bioinformatics","raw_type":"Journal Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4726481","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4726481","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":"IEEE/ACM Trans Comput Biol Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:4726481","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4726481","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":"IEEE/ACM Trans Comput Biol Bioinform","raw_type":"Text"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3069077348","display_name":null,"funder_award_id":"G12 MD007597","funder_id":"https://openalex.org/F4320337534","funder_display_name":"National Institute on Minority Health and Health Disparities"},{"id":"https://openalex.org/G5097940123","display_name":null,"funder_award_id":"635301202","funder_id":"https://openalex.org/F4320327500","funder_display_name":"Jiangsu University of Science and Technology"}],"funders":[{"id":"https://openalex.org/F4320327500","display_name":"Jiangsu University of Science and Technology","ror":"https://ror.org/00tyjp878"},{"id":"https://openalex.org/F4320337534","display_name":"National Institute on Minority Health and Health Disparities","ror":"https://ror.org/0493hgw16"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":33,"referenced_works":["https://openalex.org/W1504064513","https://openalex.org/W1506806321","https://openalex.org/W1523895109","https://openalex.org/W1605366962","https://openalex.org/W1676133928","https://openalex.org/W1770825568","https://openalex.org/W1950410402","https://openalex.org/W1982850127","https://openalex.org/W2011368877","https://openalex.org/W2020021066","https://openalex.org/W2037631027","https://openalex.org/W2042757100","https://openalex.org/W2056871360","https://openalex.org/W2079036627","https://openalex.org/W2080254594","https://openalex.org/W2121918723","https://openalex.org/W2122679732","https://openalex.org/W2126883736","https://openalex.org/W2130979840","https://openalex.org/W2131459159","https://openalex.org/W2131538597","https://openalex.org/W2133736457","https://openalex.org/W2141152740","https://openalex.org/W2149429041","https://openalex.org/W2155140332","https://openalex.org/W2162035405","https://openalex.org/W2164230672","https://openalex.org/W2166706771","https://openalex.org/W2172085375","https://openalex.org/W2296228434","https://openalex.org/W4250052351","https://openalex.org/W6631470506","https://openalex.org/W6697478362"],"related_works":["https://openalex.org/W2059565715","https://openalex.org/W2901823680","https://openalex.org/W2009940763","https://openalex.org/W4386637333","https://openalex.org/W2946410450","https://openalex.org/W4361192415","https://openalex.org/W2126804125","https://openalex.org/W2162782320","https://openalex.org/W2137318037","https://openalex.org/W1760213857"],"abstract_inverted_index":{"Searching":[0],"genomes":[1,67,106],"to":[2,81,133,145,166],"locate":[3],"noncoding":[4,25,69,89,108,173],"RNA":[5,26,90,174],"genes":[6],"with":[7,29,110,177],"known":[8],"secondary":[9,20],"structure":[10,21,31,55,75],"is":[11,27,57,125,131,143,151,164],"an":[12,62],"important":[13,86],"problem":[14],"in":[15,120],"bioinformatics.":[16],"In":[17,71,92],"general,":[18],"the":[19,35,47,58,114,121,138,148,152,184],"of":[22,38,41,61,171,186],"a":[23,30,39,51,54,73,88,97,117,128,141,172],"searched":[24,122,153],"defined":[28],"model":[32,56,76],"constructed":[33],"from":[34,43],"structural":[36],"alignment":[37,49],"set":[40],"sequences":[42],"its":[44],"family.":[45,91,175],"Computing":[46],"optimal":[48],"between":[50],"sequence":[52,118,124,149],"and":[53,127],"core":[59],"part":[60],"algorithm":[63],"that":[64,102,161],"can":[65,103],"search":[66,105,115,179],"for":[68,87,107],"RNAs.":[70],"practice,":[72],"single":[74],"may":[77],"not":[78],"be":[79],"sufficient":[80],"capture":[82,168],"all":[83],"crucial":[84,169],"features":[85,170],"this":[93,162],"paper,":[94],"we":[95],"develop":[96],"novel":[98],"machine":[99],"learning":[100],"approach":[101,163],"efficiently":[104,167],"RNAs":[109],"high":[111],"accuracy.":[112],"During":[113],"procedure,":[116],"segment":[119,150],"genome":[123,187],"processed":[126],"feature":[129,139],"vector":[130],"extracted":[132],"represent":[134],"it.":[135],"Based":[136],"on":[137],"vector,":[140],"classifier":[142],"used":[144],"determine":[146],"whether":[147],"ncRNA":[154],"or":[155],"not.":[156],"Our":[157],"testing":[158],"results":[159],"show":[160],"able":[165],"Compared":[176],"existing":[178],"tools,":[180],"it":[181],"significantly":[182],"improves":[183],"accuracy":[185],"annotation.":[188]},"counts_by_year":[{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":3}],"updated_date":"2026-08-21T09:56:20.448147","created_date":"2025-10-10T00:00:00"}
