{"id":"https://openalex.org/W2808777650","doi":"https://doi.org/10.1093/bib/bby050","title":"Versatile interactions and bioinformatics analysis of noncoding RNAs","display_name":"Versatile interactions and bioinformatics analysis of noncoding RNAs","publication_year":2018,"publication_date":"2018-05-23","ids":{"openalex":"https://openalex.org/W2808777650","doi":"https://doi.org/10.1093/bib/bby050","mag":"2808777650","pmid":"https://pubmed.ncbi.nlm.nih.gov/29939215"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bby050","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bby050","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100340127","display_name":"Qi Chen","orcid":"https://orcid.org/0000-0001-7014-1309"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qi Chen","raw_affiliation_strings":["Department of Bioinformatics, The State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang, P. R. China"],"raw_orcid":"https://orcid.org/0000-0001-7014-1309","affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, The State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang, P. R. China","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054213249","display_name":"Xianwen Meng","orcid":"https://orcid.org/0000-0001-8547-2936"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xianwen Meng","raw_affiliation_strings":["Department of Bioinformatics, The State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, The State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang, P. R. China","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102004889","display_name":"Qi Liao","orcid":"https://orcid.org/0000-0001-6796-104X"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qi Liao","raw_affiliation_strings":["Department of Bioinformatics, The State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioinformatics, The State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, Zhejiang, P. R. China","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100423292","display_name":"Ming Chen","orcid":"https://orcid.org/0000-0002-9677-1699"},"institutions":[{"id":"https://openalex.org/I109935558","display_name":"Ningbo University","ror":"https://ror.org/03et85d35","country_code":"CN","type":"education","lineage":["https://openalex.org/I109935558"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Ming Chen","raw_affiliation_strings":["Department of Preventative Medicine, Zhejiang Provincial Key Laboratory of Pathological and Physiological Technology, Medical School of Ningbo University, Ningbo, Zhejiang, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Preventative Medicine, Zhejiang Provincial Key Laboratory of Pathological and Physiological Technology, Medical School of Ningbo University, Ningbo, Zhejiang, P. R. China","institution_ids":["https://openalex.org/I109935558"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5100423292"],"corresponding_institution_ids":["https://openalex.org/I109935558"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.8749,"has_fulltext":false,"cited_by_count":45,"citation_normalized_percentile":{"value":0.68448611,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"20","issue":"5","first_page":"1781","last_page":"1794"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9998999834060669,"subfield":{"id":"https://openalex.org/subfields/1306","display_name":"Cancer Research"},"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":0.9998999834060669,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9998000264167786,"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/non-coding-rna","display_name":"Non-coding RNA","score":0.7726732492446899},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.6351523399353027},{"id":"https://openalex.org/keywords/in-silico","display_name":"In silico","score":0.5578979849815369},{"id":"https://openalex.org/keywords/workflow","display_name":"Workflow","score":0.5393045544624329},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.493103951215744},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.45398396253585815},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3699621558189392},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.33080148696899414},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.2685345411300659},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.19531378149986267},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.10448339581489563}],"concepts":[{"id":"https://openalex.org/C194993378","wikidata":"https://www.wikidata.org/wiki/Q427087","display_name":"Non-coding RNA","level":4,"score":0.7726732492446899},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.6351523399353027},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.5578979849815369},{"id":"https://openalex.org/C177212765","wikidata":"https://www.wikidata.org/wiki/Q627335","display_name":"Workflow","level":2,"score":0.5393045544624329},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.493103951215744},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.45398396253585815},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3699621558189392},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.33080148696899414},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.2685345411300659},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.19531378149986267},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.10448339581489563}],"mesh":[{"descriptor_ui":"D004742","descriptor_name":"Enhancer Elements, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004742","descriptor_name":"Enhancer Elements, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004742","descriptor_name":"Enhancer Elements, Genetic","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":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014158","descriptor_name":"Transcription, Genetic","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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bby050","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bby050","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":false,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:29939215","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29939215","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":"Briefings in bioinformatics","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.4399999976158142}],"awards":[{"id":"https://openalex.org/G2729744253","display_name":null,"funder_award_id":"31771477","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G8115334579","display_name":null,"funder_award_id":"2016YFA0501704","funder_id":"https://openalex.org/F4320335777","funder_display_name":"National Key Research and Development Program of China"},{"id":"https://openalex.org/G8205675081","display_name":null,"funder_award_id":"31571366","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320335777","display_name":"National Key Research and Development Program of China","ror":null},{"id":"https://openalex.org/F4320335787","display_name":"Fundamental Research Funds for the Central Universities","ror":null}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":154,"referenced_works":["https://openalex.org/W177743506","https://openalex.org/W748047530","https://openalex.org/W1535914077","https://openalex.org/W1560200430","https://openalex.org/W1857680029","https://openalex.org/W1920303762","https://openalex.org/W1965347187","https://openalex.org/W1969161156","https://openalex.org/W1973062929","https://openalex.org/W1975673380","https://openalex.org/W1977862919","https://openalex.org/W1978901723","https://openalex.org/W1982764945","https://openalex.org/W1985480639","https://openalex.org/W1985821091","https://openalex.org/W1985831638","https://openalex.org/W1986234964","https://openalex.org/W1987777159","https://openalex.org/W1995229781","https://openalex.org/W1997459903","https://openalex.org/W2000629769","https://openalex.org/W2006732621","https://openalex.org/W2006821612","https://openalex.org/W2008243402","https://openalex.org/W2009935171","https://openalex.org/W2011748822","https://openalex.org/W2014787267","https://openalex.org/W2015845481","https://openalex.org/W2023634791","https://openalex.org/W2024241876","https://openalex.org/W2026805262","https://openalex.org/W2029868997","https://openalex.org/W2030030642","https://openalex.org/W2031593782","https://openalex.org/W2032640007","https://openalex.org/W2034518808","https://openalex.org/W2036766833","https://openalex.org/W2037686178","https://openalex.org/W2041770101","https://openalex.org/W2042191361","https://openalex.org/W2042670878","https://openalex.org/W2044117548","https://openalex.org/W2046170368","https://openalex.org/W2046318418","https://openalex.org/W2046387002","https://openalex.org/W2047333953","https://openalex.org/W2048999577","https://openalex.org/W2050426121","https://openalex.org/W2050869737","https://openalex.org/W2053293102","https://openalex.org/W2053855164","https://openalex.org/W2055493067","https://openalex.org/W2059478037","https://openalex.org/W2062313490","https://openalex.org/W2064165694","https://openalex.org/W2067022150","https://openalex.org/W2075863097","https://openalex.org/W2077248019","https://openalex.org/W2077327925","https://openalex.org/W2078164390","https://openalex.org/W2080251115","https://openalex.org/W2089485269","https://openalex.org/W2091070751","https://openalex.org/W2095968788","https://openalex.org/W2097065948","https://openalex.org/W2099468911","https://openalex.org/W2102278945","https://openalex.org/W2102819831","https://openalex.org/W2104806799","https://openalex.org/W2107959716","https://openalex.org/W2108012214","https://openalex.org/W2108575282","https://openalex.org/W2109950909","https://openalex.org/W2113945915","https://openalex.org/W2115171906","https://openalex.org/W2115662330","https://openalex.org/W2118420574","https://openalex.org/W2118526609","https://openalex.org/W2118648510","https://openalex.org/W2119501676","https://openalex.org/W2120794445","https://openalex.org/W2122984483","https://openalex.org/W2127230663","https://openalex.org/W2127861583","https://openalex.org/W2132283613","https://openalex.org/W2133484520","https://openalex.org/W2134625814","https://openalex.org/W2134975289","https://openalex.org/W2138664009","https://openalex.org/W2141478791","https://openalex.org/W2144177541","https://openalex.org/W2145931730","https://openalex.org/W2147806662","https://openalex.org/W2149788324","https://openalex.org/W2151464048","https://openalex.org/W2151922790","https://openalex.org/W2152041515","https://openalex.org/W2152623715","https://openalex.org/W2152956039","https://openalex.org/W2158381555","https://openalex.org/W2161471331","https://openalex.org/W2161671616","https://openalex.org/W2162674813","https://openalex.org/W2163199119","https://openalex.org/W2165558713","https://openalex.org/W2166810745","https://openalex.org/W2167868554","https://openalex.org/W2168192523","https://openalex.org/W2168909179","https://openalex.org/W2168984079","https://openalex.org/W2169456326","https://openalex.org/W2172932999","https://openalex.org/W2186287815","https://openalex.org/W2209200250","https://openalex.org/W2210577735","https://openalex.org/W2215639959","https://openalex.org/W2217809488","https://openalex.org/W2259938310","https://openalex.org/W2336850185","https://openalex.org/W2383534773","https://openalex.org/W2481737556","https://openalex.org/W2508362099","https://openalex.org/W2527824902","https://openalex.org/W2529646778","https://openalex.org/W2532537254","https://openalex.org/W2537453540","https://openalex.org/W2540331622","https://openalex.org/W2556763090","https://openalex.org/W2557141539","https://openalex.org/W2557283063","https://openalex.org/W2559373412","https://openalex.org/W2572986783","https://openalex.org/W2577903052","https://openalex.org/W2587667774","https://openalex.org/W2588343257","https://openalex.org/W2596417560","https://openalex.org/W2610733803","https://openalex.org/W2621270629","https://openalex.org/W2744268790","https://openalex.org/W2748715550","https://openalex.org/W2751076435","https://openalex.org/W2753942456","https://openalex.org/W2755353730","https://openalex.org/W2760503369","https://openalex.org/W2761530751","https://openalex.org/W2768781242","https://openalex.org/W2769912973","https://openalex.org/W2771031897","https://openalex.org/W2784380838","https://openalex.org/W2952421891","https://openalex.org/W6725105739","https://openalex.org/W6728609114","https://openalex.org/W6732537500","https://openalex.org/W6748810007"],"related_works":["https://openalex.org/W3129816939","https://openalex.org/W2912862995","https://openalex.org/W2985427592","https://openalex.org/W2058984380","https://openalex.org/W1988125422","https://openalex.org/W2900182103","https://openalex.org/W3183769948","https://openalex.org/W3184762873","https://openalex.org/W4283575908","https://openalex.org/W2768774857"],"abstract_inverted_index":{"Advances":[0],"in":[1,34,46,102],"RNA":[2,15,56],"sequencing":[3,90],"technologies":[4],"and":[5,67,92,110,116],"computational":[6,93],"methodologies":[7],"have":[8],"provided":[9],"a":[10,98],"huge":[11],"impetus":[12],"to":[13,30,84,113],"noncoding":[14],"(ncRNA)":[16],"study.":[17],"Once":[18],"regarded":[19],"as":[20,43],"inconsequential":[21],"results":[22],"of":[23,37,64,71,88],"transcriptional":[24],"promiscuity,":[25],"ncRNAs":[26],"were":[27],"later":[28],"found":[29],"exert":[31],"great":[32],"roles":[33],"various":[35],"aspects":[36],"biological":[38],"functions.":[39],"They":[40],"are":[41],"emerging":[42],"key":[44],"players":[45],"gene":[47],"regulatory":[48],"networks":[49],"by":[50],"interacting":[51],"with":[52],"other":[53],"biomolecules":[54],"(DNA,":[55],"or":[57],"protein).":[58],"Here,":[59],"we":[60],"provide":[61],"an":[62],"overview":[63],"ncRNA":[65,104,114],"repertoire":[66],"highlight":[68],"recent":[69],"discoveries":[70],"their":[72],"versatile":[73],"interactions.":[74],"To":[75],"better":[76],"investigate":[77],"the":[78],"ncRNA-mediated":[79],"regulation,":[80],"it":[81],"is":[82],"necessary":[83],"make":[85],"full":[86],"use":[87],"innovative":[89],"techniques":[91],"tools.":[94],"We":[95],"further":[96],"describe":[97],"comprehensive":[99],"workflow":[100],"for":[101],"silico":[103],"analysis,":[105],"providing":[106],"up-to-date":[107],"platforms,":[108],"databases":[109],"tools":[111],"dedicated":[112],"identification":[115],"functional":[117],"annotation.":[118]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":7},{"year":2024,"cited_by_count":9},{"year":2023,"cited_by_count":6},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
