{"id":"https://openalex.org/W2216543751","doi":"https://doi.org/10.1142/s0219720016500062","title":"OP-Triplet-ELM: Identification of real and pseudo microRNA precursors using extreme learning machine with optimal features","display_name":"OP-Triplet-ELM: Identification of real and pseudo microRNA precursors using extreme learning machine with optimal features","publication_year":2015,"publication_date":"2015-10-27","ids":{"openalex":"https://openalex.org/W2216543751","doi":"https://doi.org/10.1142/s0219720016500062","mag":"2216543751","pmid":"https://pubmed.ncbi.nlm.nih.gov/26707924"},"language":"en","primary_location":{"id":"doi:10.1142/s0219720016500062","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720016500062","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/A5024796378","display_name":"Cong Pian","orcid":"https://orcid.org/0000-0001-7401-2926"},"institutions":[{"id":"https://openalex.org/I119454577","display_name":"Nanjing Agricultural University","ror":"https://ror.org/05td3s095","country_code":"CN","type":"education","lineage":["https://openalex.org/I119454577"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Cong Pian","raw_affiliation_strings":["College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China"],"affiliations":[{"raw_affiliation_string":"College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China","institution_ids":["https://openalex.org/I119454577"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100405903","display_name":"Jin Zhang","orcid":"https://orcid.org/0000-0001-6583-2391"},"institutions":[{"id":"https://openalex.org/I119454577","display_name":"Nanjing Agricultural University","ror":"https://ror.org/05td3s095","country_code":"CN","type":"education","lineage":["https://openalex.org/I119454577"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jin Zhang","raw_affiliation_strings":["College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China"],"affiliations":[{"raw_affiliation_string":"College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China","institution_ids":["https://openalex.org/I119454577"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066796478","display_name":"Yuanyuan Chen","orcid":"https://orcid.org/0000-0002-5358-9213"},"institutions":[{"id":"https://openalex.org/I119454577","display_name":"Nanjing Agricultural University","ror":"https://ror.org/05td3s095","country_code":"CN","type":"education","lineage":["https://openalex.org/I119454577"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuan-Yuan Chen","raw_affiliation_strings":["College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China"],"affiliations":[{"raw_affiliation_string":"College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China","institution_ids":["https://openalex.org/I119454577"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100710079","display_name":"Zhi Chen","orcid":"https://orcid.org/0000-0003-1993-5749"},"institutions":[{"id":"https://openalex.org/I119454577","display_name":"Nanjing Agricultural University","ror":"https://ror.org/05td3s095","country_code":"CN","type":"education","lineage":["https://openalex.org/I119454577"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhi Chen","raw_affiliation_strings":["College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China"],"affiliations":[{"raw_affiliation_string":"College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China","institution_ids":["https://openalex.org/I119454577"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101568412","display_name":"Qin Li","orcid":"https://orcid.org/0000-0002-9327-550X"},"institutions":[{"id":"https://openalex.org/I119454577","display_name":"Nanjing Agricultural University","ror":"https://ror.org/05td3s095","country_code":"CN","type":"education","lineage":["https://openalex.org/I119454577"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qin Li","raw_affiliation_strings":["College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China"],"affiliations":[{"raw_affiliation_string":"College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China","institution_ids":["https://openalex.org/I119454577"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100429898","display_name":"Qiang Li","orcid":"https://orcid.org/0000-0001-7510-4718"},"institutions":[{"id":"https://openalex.org/I119454577","display_name":"Nanjing Agricultural University","ror":"https://ror.org/05td3s095","country_code":"CN","type":"education","lineage":["https://openalex.org/I119454577"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qiang Li","raw_affiliation_strings":["College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China"],"affiliations":[{"raw_affiliation_string":"College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China","institution_ids":["https://openalex.org/I119454577"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5028884115","display_name":"Liangyun Zhang","orcid":"https://orcid.org/0000-0003-2425-9650"},"institutions":[{"id":"https://openalex.org/I119454577","display_name":"Nanjing Agricultural University","ror":"https://ror.org/05td3s095","country_code":"CN","type":"education","lineage":["https://openalex.org/I119454577"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Liang-Yun Zhang","raw_affiliation_strings":["College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China"],"affiliations":[{"raw_affiliation_string":"College of Science, Nanjing Agricultural, University, Nanjing 210095, P. R. China","institution_ids":["https://openalex.org/I119454577"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5024796378"],"corresponding_institution_ids":["https://openalex.org/I119454577"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.0754079,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"14","issue":"01","first_page":"1650006","last_page":"1650006"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10062","display_name":"MicroRNA in disease regulation","score":0.9998000264167786,"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/T10062","display_name":"MicroRNA in disease regulation","score":0.9998000264167786,"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/T12676","display_name":"Machine Learning and ELM","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9983999729156494,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/extreme-learning-machine","display_name":"Extreme learning machine","score":0.8678855299949646},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.6487928032875061},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6413146257400513},{"id":"https://openalex.org/keywords/random-forest","display_name":"Random forest","score":0.6113765239715576},{"id":"https://openalex.org/keywords/classifier","display_name":"Classifier (UML)","score":0.5864943861961365},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.5775789022445679},{"id":"https://openalex.org/keywords/redundancy","display_name":"Redundancy (engineering)","score":0.5707264542579651},{"id":"https://openalex.org/keywords/feature-vector","display_name":"Feature vector","score":0.5616114139556885},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5301141738891602},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.39351361989974976},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.34516477584838867}],"concepts":[{"id":"https://openalex.org/C2780150128","wikidata":"https://www.wikidata.org/wiki/Q21948731","display_name":"Extreme learning machine","level":3,"score":0.8678855299949646},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.6487928032875061},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6413146257400513},{"id":"https://openalex.org/C169258074","wikidata":"https://www.wikidata.org/wiki/Q245748","display_name":"Random forest","level":2,"score":0.6113765239715576},{"id":"https://openalex.org/C95623464","wikidata":"https://www.wikidata.org/wiki/Q1096149","display_name":"Classifier (UML)","level":2,"score":0.5864943861961365},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.5775789022445679},{"id":"https://openalex.org/C152124472","wikidata":"https://www.wikidata.org/wiki/Q1204361","display_name":"Redundancy (engineering)","level":2,"score":0.5707264542579651},{"id":"https://openalex.org/C83665646","wikidata":"https://www.wikidata.org/wiki/Q42139305","display_name":"Feature vector","level":2,"score":0.5616114139556885},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5301141738891602},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.39351361989974976},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.34516477584838867},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"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":"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":"D012322","descriptor_name":"RNA Precursors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012322","descriptor_name":"RNA Precursors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012322","descriptor_name":"RNA Precursors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1142/s0219720016500062","is_oa":false,"landing_page_url":"https://doi.org/10.1142/s0219720016500062","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:26707924","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26707924","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":[{"display_name":"Affordable and clean energy","score":0.6899999976158142,"id":"https://metadata.un.org/sdg/7"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320322769","display_name":"Natural Science Foundation of Jiangsu Province","ror":"https://ror.org/01h0zpd94"},{"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":50,"referenced_works":["https://openalex.org/W623299527","https://openalex.org/W1496367743","https://openalex.org/W1845151788","https://openalex.org/W1920564293","https://openalex.org/W1967517087","https://openalex.org/W1983808106","https://openalex.org/W1990678622","https://openalex.org/W1991683888","https://openalex.org/W2007660972","https://openalex.org/W2012273317","https://openalex.org/W2028549892","https://openalex.org/W2034070267","https://openalex.org/W2036329916","https://openalex.org/W2046164383","https://openalex.org/W2047350450","https://openalex.org/W2049562909","https://openalex.org/W2050298867","https://openalex.org/W2052785172","https://openalex.org/W2055981636","https://openalex.org/W2056886679","https://openalex.org/W2059971420","https://openalex.org/W2070980386","https://openalex.org/W2073223847","https://openalex.org/W2074196504","https://openalex.org/W2079830359","https://openalex.org/W2091505355","https://openalex.org/W2093213907","https://openalex.org/W2098044747","https://openalex.org/W2103250001","https://openalex.org/W2109553965","https://openalex.org/W2111072639","https://openalex.org/W2112810020","https://openalex.org/W2114973325","https://openalex.org/W2130386995","https://openalex.org/W2130993320","https://openalex.org/W2131674459","https://openalex.org/W2132292391","https://openalex.org/W2135015580","https://openalex.org/W2140446903","https://openalex.org/W2143593801","https://openalex.org/W2148603752","https://openalex.org/W2149009156","https://openalex.org/W2150770935","https://openalex.org/W2156847802","https://openalex.org/W2157039533","https://openalex.org/W2160257187","https://openalex.org/W2168230240","https://openalex.org/W2184343450","https://openalex.org/W2911964244","https://openalex.org/W4253157748"],"related_works":["https://openalex.org/W3217110323","https://openalex.org/W2734744645","https://openalex.org/W2041636156","https://openalex.org/W2153189372","https://openalex.org/W3004377704","https://openalex.org/W2187500075","https://openalex.org/W2348964713","https://openalex.org/W2508925980","https://openalex.org/W2275058042","https://openalex.org/W2160451891"],"abstract_inverted_index":{"MicroRNAs":[0],"(miRNAs)":[1],"are":[2,142],"a":[3,47,57,99,117],"set":[4],"of":[5,63,73,90,139,154,171,188],"short":[6],"(21-24":[7],"nt)":[8],"non-coding":[9],"RNAs":[10],"that":[11,129],"play":[12],"significant":[13],"regulatory":[14],"roles":[15],"in":[16],"the":[17,27,40,61,82,88,91,130,150,167,186,189,193],"cells.":[18],"Triplet-SVM-classifier":[19],"and":[20,86,111,144,165,192],"MiPred":[21,163],"(random":[22],"forest,":[23],"RF)":[24],"can":[25,45,80,102],"identify":[26],"real":[28],"pre-miRNAs":[29],"from":[30,94],"other":[31],"hairpin":[32],"sequences":[33],"with":[34,148,162],"similar":[35],"stem-loop":[36],"(pseudo":[37],"pre-miRNAs).":[38],"However,":[39],"32-dimensional":[41],"local":[42,74],"contiguous":[43,75],"structure-sequence":[44],"induce":[46],"great":[48],"information":[49,83],"redundancy.":[50],"Therefore,":[51],"it":[52],"is":[53,180],"essential":[54],"to":[55,59,96],"develop":[56],"method":[58,141,157,174,183],"reduce":[60],"dimension":[62,89,187],"feature":[64,92,101,190],"space.":[65],"In":[66],"this":[67],"paper,":[68],"we":[69],"propose":[70],"optimal":[71],"features":[72,79],"structure-sequences":[76],"(OP-Triplet).":[77],"These":[78],"avoid":[81],"redundancy":[84],"effectively":[85],"decrease":[87],"vector":[93],"32":[95],"8.":[97],"Meanwhile,":[98],"hybrid":[100],"be":[103],"formed":[104],"by":[105,159,177],"combining":[106],"minimum":[107],"free":[108],"energy":[109],"(MFE)":[110],"structural":[112],"diversity.":[113],"We":[114],"also":[115],"introduce":[116],"neural":[118],"network":[119],"algorithm":[120],"called":[121],"extreme":[122],"learning":[123],"machine":[124],"(ELM).":[125],"The":[126],"results":[127],"show":[128],"specificity":[131],"([Formula:":[132,136],"see":[133,137],"text])and":[134],"sensitivity":[135],"text])":[138],"our":[140,155,172,182],"92.4%":[143],"91.0%,":[145],"respectively.":[146],"Compared":[147,161],"Triplet-SVM-classifier,":[149],"total":[151,168],"accuracy":[152,169],"(ACC)":[153,170],"ELM":[156,173],"increases":[158,175],"5%.":[160],"(RF)":[164],"miRANN,":[166],"nearly":[176],"2%.":[178],"What":[179],"more,":[181],"commendably":[184],"reduces":[185],"space":[191],"training":[194],"time.":[195]},"counts_by_year":[{"year":2022,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}