{"id":"https://openalex.org/W2315439218","doi":"https://doi.org/10.1142/s0219720016500165","title":"lncRNATargets: A platform for lncRNA target prediction based on nucleic acid thermodynamics","display_name":"lncRNATargets: A platform for lncRNA target prediction based on nucleic acid thermodynamics","publication_year":2016,"publication_date":"2016-03-31","ids":{"openalex":"https://openalex.org/W2315439218","doi":"https://doi.org/10.1142/s0219720016500165","mag":"2315439218","pmid":"https://pubmed.ncbi.nlm.nih.gov/27306075"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720016500165","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720016500165","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","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/A5014283519","display_name":"Ruifeng Hu","orcid":"https://orcid.org/0000-0001-5549-3082"},"institutions":[{"id":"https://openalex.org/I1327237609","display_name":"Ministry of Education of the People's Republic of China","ror":"https://ror.org/01mv9t934","country_code":"CN","type":"government","lineage":["https://openalex.org/I1327237609","https://openalex.org/I4210127390"]},{"id":"https://openalex.org/I200296433","display_name":"Chinese Academy of Medical Sciences & Peking Union Medical College","ror":"https://ror.org/02drdmm93","country_code":"CN","type":"education","lineage":["https://openalex.org/I200296433"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ruifeng Hu","raw_affiliation_strings":["Beijing Key Laboratory of Innovative, Drug Discovery of Traditional Chinese Medicine (Natural Medicine) and Translational Medicine, Institute of Medicinal Plant Development, Peking Union Medical College and Chinese Academy of Medical Sciences, Beijing 100193, P. R. China","Key Laboratory of Bioactive Substances and Resource, Utilization of Chinese Herbal Medicine, Ministry of Education, P. R. China","Zhongguancun Open Laboratory of the Research and Development of Natural Medicine and Health Products, P. R. China"],"raw_orcid":"https://orcid.org/0000-0001-5549-3082","affiliations":[{"raw_affiliation_string":"Beijing Key Laboratory of Innovative, Drug Discovery of Traditional Chinese Medicine (Natural Medicine) and Translational Medicine, Institute of Medicinal Plant Development, Peking Union Medical College and Chinese Academy of Medical Sciences, Beijing 100193, P. R. China","institution_ids":["https://openalex.org/I200296433"]},{"raw_affiliation_string":"Key Laboratory of Bioactive Substances and Resource, Utilization of Chinese Herbal Medicine, Ministry of Education, P. R. China","institution_ids":["https://openalex.org/I1327237609"]},{"raw_affiliation_string":"Zhongguancun Open Laboratory of the Research and Development of Natural Medicine and Health Products, P. R. China","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065527238","display_name":"Xiaobo Sun","orcid":"https://orcid.org/0000-0001-9876-5666"},"institutions":[{"id":"https://openalex.org/I1327237609","display_name":"Ministry of Education of the People's Republic of China","ror":"https://ror.org/01mv9t934","country_code":"CN","type":"government","lineage":["https://openalex.org/I1327237609","https://openalex.org/I4210127390"]},{"id":"https://openalex.org/I200296433","display_name":"Chinese Academy of Medical Sciences & Peking Union Medical College","ror":"https://ror.org/02drdmm93","country_code":"CN","type":"education","lineage":["https://openalex.org/I200296433"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaobo Sun","raw_affiliation_strings":["Beijing Key Laboratory of Innovative, Drug Discovery of Traditional Chinese Medicine (Natural Medicine) and Translational Medicine, Institute of Medicinal Plant Development, Peking Union Medical College and Chinese Academy of Medical Sciences, Beijing 100193, P. R. China","Key Laboratory of Bioactive Substances and Resource, Utilization of Chinese Herbal Medicine, Ministry of Education, P. R. China","Zhongguancun Open Laboratory of the Research and Development of Natural Medicine and Health Products, P. R. China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beijing Key Laboratory of Innovative, Drug Discovery of Traditional Chinese Medicine (Natural Medicine) and Translational Medicine, Institute of Medicinal Plant Development, Peking Union Medical College and Chinese Academy of Medical Sciences, Beijing 100193, P. R. China","institution_ids":["https://openalex.org/I200296433"]},{"raw_affiliation_string":"Key Laboratory of Bioactive Substances and Resource, Utilization of Chinese Herbal Medicine, Ministry of Education, P. R. China","institution_ids":["https://openalex.org/I1327237609"]},{"raw_affiliation_string":"Zhongguancun Open Laboratory of the Research and Development of Natural Medicine and Health Products, P. R. China","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5065527238"],"corresponding_institution_ids":["https://openalex.org/I1327237609","https://openalex.org/I200296433"],"apc_list":null,"apc_paid":null,"fwci":1.4414,"has_fulltext":false,"cited_by_count":27,"citation_normalized_percentile":{"value":0.79584376,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"14","issue":"04","first_page":"1650016","last_page":"1650016"},"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/T13220","display_name":"Plant and Fungal Interactions Research","score":0.9962000250816345,"subfield":{"id":"https://openalex.org/subfields/1310","display_name":"Endocrinology"},"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":0.9940000176429749,"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/computer-science","display_name":"Computer science","score":0.6940262913703918},{"id":"https://openalex.org/keywords/nucleic-acid","display_name":"Nucleic acid","score":0.622317910194397},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.43817633390426636},{"id":"https://openalex.org/keywords/energy","display_name":"Energy (signal processing)","score":0.4226382076740265},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3943884074687958},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.38506999611854553},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3780668377876282},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3278042674064636},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.24147295951843262},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.19173184037208557},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1547025740146637},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10853004455566406}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6940262913703918},{"id":"https://openalex.org/C24107716","wikidata":"https://www.wikidata.org/wiki/Q123619","display_name":"Nucleic acid","level":2,"score":0.622317910194397},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.43817633390426636},{"id":"https://openalex.org/C186370098","wikidata":"https://www.wikidata.org/wiki/Q442787","display_name":"Energy (signal processing)","level":2,"score":0.4226382076740265},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3943884074687958},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.38506999611854553},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3780668377876282},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3278042674064636},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.24147295951843262},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.19173184037208557},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1547025740146637},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10853004455566406},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","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":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","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":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0219720016500165","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720016500165","pdf_url":null,"source":{"id":"https://openalex.org/S155349577","display_name":"Journal of Bioinformatics and Computational Biology","issn_l":"0219-7200","issn":["0219-7200","1757-6334"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311754","host_organization_name":"Imperial College Press","host_organization_lineage":["https://openalex.org/P4310311754"],"host_organization_lineage_names":["Imperial College Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Bioinformatics and Computational Biology","raw_type":"journal-article"},{"id":"pmid:27306075","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/27306075","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":"Journal of bioinformatics and computational biology","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy","score":0.800000011920929}],"awards":[{"id":"https://openalex.org/G8735326081","display_name":null,"funder_award_id":"81374011","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"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":28,"referenced_works":["https://openalex.org/W1749541240","https://openalex.org/W1978811100","https://openalex.org/W2004307038","https://openalex.org/W2039816251","https://openalex.org/W2052938279","https://openalex.org/W2059878940","https://openalex.org/W2064580019","https://openalex.org/W2067765119","https://openalex.org/W2071271349","https://openalex.org/W2088069070","https://openalex.org/W2097702406","https://openalex.org/W2100582928","https://openalex.org/W2107116149","https://openalex.org/W2112821430","https://openalex.org/W2116791963","https://openalex.org/W2117070486","https://openalex.org/W2117977572","https://openalex.org/W2119340328","https://openalex.org/W2125181285","https://openalex.org/W2128983843","https://openalex.org/W2144723744","https://openalex.org/W2150098952","https://openalex.org/W2160515562","https://openalex.org/W2165423269","https://openalex.org/W2165721509","https://openalex.org/W2166700656","https://openalex.org/W2174181728","https://openalex.org/W2610499739"],"related_works":["https://openalex.org/W1971444612","https://openalex.org/W1543504406","https://openalex.org/W633173308","https://openalex.org/W2383750441","https://openalex.org/W1572021523","https://openalex.org/W2802691951","https://openalex.org/W2061946247","https://openalex.org/W2135990064","https://openalex.org/W2085406081","https://openalex.org/W2011393572"],"abstract_inverted_index":{"Many":[0],"studies":[1],"have":[2],"supported":[3],"that":[4,82,107,131,147],"long":[5],"noncoding":[6],"RNAs":[7,37],"(lncRNAs)":[8],"perform":[9],"various":[10,13],"functions":[11,31],"in":[12,124],"critical":[14],"biological":[15],"processes.":[16],"Advanced":[17],"experimental":[18],"and":[19,32,84,139,143,155,188],"computational":[20],"technologies":[21],"allow":[22,108,148],"access":[23,150],"to":[24,68,134,174],"more":[25],"information":[26],"on":[27,38,58,167],"lncRNAs.":[28],"Determining":[29],"the":[30,99,168],"action":[33],"mechanisms":[34],"of":[35,75,86,92,103,159,171],"these":[36,177],"a":[39,50,93,104],"large":[40],"scale":[41],"is":[42,49,132,192],"urgently":[43],"needed.":[44],"We":[45],"provided":[46],"lncRNATargets,":[47],"which":[48],"web-based":[51],"platform":[52],"for":[53,78,112,116,151,194],"lncRNA":[54],"target":[55],"prediction":[56],"based":[57],"nucleic":[59,79],"acid":[60,80],"thermodynamics.":[61],"The":[62,72],"nearest-neighbor":[63],"(NN)":[64],"model":[65,77],"was":[66],"used":[67],"calculate":[69],"binging-free":[70],"energy.":[71],"main":[73],"principle":[74],"NN":[76],"assumes":[81],"identity":[83],"orientation":[85],"neighbor":[87],"base":[88,95],"pairs":[89],"determine":[90],"stability":[91],"given":[94],"pair.":[96],"lncRNATargets":[97,183],"features":[98],"following":[100],"options:":[101],"setting":[102],"specific":[105],"temperature":[106],"use":[109],"not":[110],"only":[111],"human":[113],"but":[114],"also":[115],"other":[117,136],"animals":[118],"or":[119],"plants;":[120],"processing":[121],"all":[122],"lncRNAs":[123],"high":[125,185],"throughput":[126],"without":[127],"RNA":[128],"size":[129],"limitation":[130],"superior":[133],"any":[135],"existing":[137],"tool;":[138],"web-based,":[140],"user-friendly":[141,190],"interface,":[142],"colored":[144],"result":[145],"displays":[146],"easy":[149],"nonskilled":[152],"computer":[153],"operators":[154],"provide":[156,164],"better":[157],"understanding":[158],"results.":[160],"This":[161],"technique":[162],"could":[163],"accurate":[165],"calculation":[166],"binding-free":[169],"energy":[170],"lncRNA-target":[172],"dimers":[173],"predict":[175],"if":[176],"structures":[178],"are":[179],"well":[180],"targeted":[181],"together.":[182],"provides":[184],"accuracy":[186],"calculations,":[187],"this":[189],"program":[191],"available":[193],"free":[195],"at":[196],"http://www.herbbol.org:8001/lrt/":[197],".":[198]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
