{"id":"https://openalex.org/W3206601677","doi":"https://doi.org/10.1093/bib/bbab431","title":"Ensemble of kernel ridge regression-based small molecule\u2013miRNA association prediction in human disease","display_name":"Ensemble of kernel ridge regression-based small molecule\u2013miRNA association prediction in human disease","publication_year":2021,"publication_date":"2021-09-20","ids":{"openalex":"https://openalex.org/W3206601677","doi":"https://doi.org/10.1093/bib/bbab431","mag":"3206601677","pmid":"https://pubmed.ncbi.nlm.nih.gov/34676393"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbab431","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbab431","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":"article","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/A5027613930","display_name":"Chun-Chun Wang","orcid":"https://orcid.org/0000-0002-6795-4007"},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chun-Chun Wang","raw_affiliation_strings":["School of Information and Control Engineering, China University of Mining and Technology, Xuzhou 221116, China"],"raw_orcid":"https://orcid.org/0000-0002-6795-4007","affiliations":[{"raw_affiliation_string":"School of Information and Control Engineering, China University of Mining and Technology, Xuzhou 221116, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5082743227","display_name":"Chi-Chi Zhu","orcid":null},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chi-Chi Zhu","raw_affiliation_strings":["School of Information and Control Engineering, China University of Mining and Technology, Xuzhou 221116, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Information and Control Engineering, China University of Mining and Technology, Xuzhou 221116, China","institution_ids":["https://openalex.org/I25757504"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036210249","display_name":"Xing Chen","orcid":"https://orcid.org/0000-0001-9028-5342"},"institutions":[{"id":"https://openalex.org/I25757504","display_name":"China University of Mining and Technology","ror":"https://ror.org/01xt2dr21","country_code":"CN","type":"education","lineage":["https://openalex.org/I25757504"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xing Chen","raw_affiliation_strings":["Artificial Intelligence Research Institute, China University of Mining and Technology, Xuzhou 221116, China"],"raw_orcid":"https://orcid.org/0000-0001-9028-5342","affiliations":[{"raw_affiliation_string":"Artificial Intelligence Research Institute, China University of Mining and Technology, Xuzhou 221116, China","institution_ids":["https://openalex.org/I25757504"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5036210249"],"corresponding_institution_ids":["https://openalex.org/I25757504"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":2.9169,"has_fulltext":false,"cited_by_count":52,"citation_normalized_percentile":{"value":0.92639677,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":99,"max":100},"biblio":{"volume":"23","issue":"1","first_page":null,"last_page":null},"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/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.996399998664856,"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/T11765","display_name":"Circular RNAs in diseases","score":0.9902999997138977,"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/support-vector-machine","display_name":"Support vector machine","score":0.6254977583885193},{"id":"https://openalex.org/keywords/kernel","display_name":"Kernel (algebra)","score":0.5948307514190674},{"id":"https://openalex.org/keywords/regression","display_name":"Regression","score":0.5772151947021484},{"id":"https://openalex.org/keywords/cross-validation","display_name":"Cross-validation","score":0.5744485855102539},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.54966139793396},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.534825325012207},{"id":"https://openalex.org/keywords/feature-selection","display_name":"Feature selection","score":0.5229694843292236},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49129432439804077},{"id":"https://openalex.org/keywords/curse-of-dimensionality","display_name":"Curse of dimensionality","score":0.4775843918323517},{"id":"https://openalex.org/keywords/feature","display_name":"Feature (linguistics)","score":0.47477269172668457},{"id":"https://openalex.org/keywords/ensemble-learning","display_name":"Ensemble learning","score":0.42196884751319885},{"id":"https://openalex.org/keywords/feature-vector","display_name":"Feature vector","score":0.41877907514572144},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.36289823055267334},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.26630476117134094}],"concepts":[{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.6254977583885193},{"id":"https://openalex.org/C74193536","wikidata":"https://www.wikidata.org/wiki/Q574844","display_name":"Kernel (algebra)","level":2,"score":0.5948307514190674},{"id":"https://openalex.org/C83546350","wikidata":"https://www.wikidata.org/wiki/Q1139051","display_name":"Regression","level":2,"score":0.5772151947021484},{"id":"https://openalex.org/C27181475","wikidata":"https://www.wikidata.org/wiki/Q541014","display_name":"Cross-validation","level":2,"score":0.5744485855102539},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.54966139793396},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.534825325012207},{"id":"https://openalex.org/C148483581","wikidata":"https://www.wikidata.org/wiki/Q446488","display_name":"Feature selection","level":2,"score":0.5229694843292236},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49129432439804077},{"id":"https://openalex.org/C111030470","wikidata":"https://www.wikidata.org/wiki/Q1430460","display_name":"Curse of dimensionality","level":2,"score":0.4775843918323517},{"id":"https://openalex.org/C2776401178","wikidata":"https://www.wikidata.org/wiki/Q12050496","display_name":"Feature (linguistics)","level":2,"score":0.47477269172668457},{"id":"https://openalex.org/C45942800","wikidata":"https://www.wikidata.org/wiki/Q245652","display_name":"Ensemble learning","level":2,"score":0.42196884751319885},{"id":"https://openalex.org/C83665646","wikidata":"https://www.wikidata.org/wiki/Q42139305","display_name":"Feature vector","level":2,"score":0.41877907514572144},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.36289823055267334},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.26630476117134094},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0}],"mesh":[{"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":"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":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012372","descriptor_name":"ROC Curve","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":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019540","descriptor_name":"Area Under Curve","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020022","descriptor_name":"Genetic Predisposition to Disease","qualifier_ui":null,"qualifier_name":null,"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:10.1093/bib/bbab431","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbab431","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:34676393","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34676393","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":[{"id":"https://metadata.un.org/sdg/3","score":0.550000011920929,"display_name":"Good health and well-being"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":66,"referenced_works":["https://openalex.org/W14098964","https://openalex.org/W144423133","https://openalex.org/W176909285","https://openalex.org/W1667789979","https://openalex.org/W1889514258","https://openalex.org/W1972694236","https://openalex.org/W1975441976","https://openalex.org/W1979537657","https://openalex.org/W1984014392","https://openalex.org/W1984684840","https://openalex.org/W1989454102","https://openalex.org/W1998794592","https://openalex.org/W2011350824","https://openalex.org/W2014946489","https://openalex.org/W2023316880","https://openalex.org/W2040960125","https://openalex.org/W2048080362","https://openalex.org/W2053158522","https://openalex.org/W2064131445","https://openalex.org/W2067915426","https://openalex.org/W2069682633","https://openalex.org/W2077576784","https://openalex.org/W2087975583","https://openalex.org/W2090335107","https://openalex.org/W2096852181","https://openalex.org/W2098318517","https://openalex.org/W2105649494","https://openalex.org/W2106029302","https://openalex.org/W2106210472","https://openalex.org/W2109115947","https://openalex.org/W2111112354","https://openalex.org/W2113072832","https://openalex.org/W2116439283","https://openalex.org/W2122211092","https://openalex.org/W2123602182","https://openalex.org/W2127553917","https://openalex.org/W2128768066","https://openalex.org/W2137052779","https://openalex.org/W2153210075","https://openalex.org/W2175278559","https://openalex.org/W2177627974","https://openalex.org/W2257870527","https://openalex.org/W2331772202","https://openalex.org/W2343107734","https://openalex.org/W2346732397","https://openalex.org/W2395168605","https://openalex.org/W2443187137","https://openalex.org/W2444690946","https://openalex.org/W2469459870","https://openalex.org/W2470602054","https://openalex.org/W2560587885","https://openalex.org/W2612083102","https://openalex.org/W2623060321","https://openalex.org/W2756268343","https://openalex.org/W2765950793","https://openalex.org/W2884985642","https://openalex.org/W2896829849","https://openalex.org/W2896907688","https://openalex.org/W2900597665","https://openalex.org/W2946952196","https://openalex.org/W2958279967","https://openalex.org/W3011039146","https://openalex.org/W3082442646","https://openalex.org/W4248107770","https://openalex.org/W6720462496","https://openalex.org/W6755952022"],"related_works":["https://openalex.org/W4296209631","https://openalex.org/W2561617217","https://openalex.org/W3097449145","https://openalex.org/W4294811468","https://openalex.org/W2355801475","https://openalex.org/W106004901","https://openalex.org/W2170062176","https://openalex.org/W195542429","https://openalex.org/W945324584","https://openalex.org/W4206911031"],"abstract_inverted_index":{"MicroRNAs":[0],"(miRNAs)":[1],"play":[2],"crucial":[3],"roles":[4],"in":[5,27,111],"human":[6,28],"disease":[7,29,36],"and":[8,35,63,75,88,142,155,175,204,226],"can":[9],"be":[10],"targeted":[11],"by":[12,58,239],"small":[13],"molecule":[14],"(SM)":[15],"drugs":[16],"according":[17],"to":[18,53,119],"numerous":[19],"studies,":[20],"which":[21,145],"shows":[22],"that":[23,248],"identifying":[24],"SM-miRNA":[25,56,100,254],"associations":[26,57],"is":[30,250],"important":[31],"for":[32,72,252],"drug":[33],"development":[34],"treatment.":[37],"We":[38],"proposed":[39],"the":[40,90,112,121,127,133,151,159,189],"method":[41],"of":[42,44,92,114,116,123,135,150,153,162,197,230],"Ensemble":[43],"Kernel":[45],"Ridge":[46],"Regression-based":[47],"Small":[48],"Molecule-MiRNA":[49],"Association":[50],"prediction":[51,160],"(EKRRSMMA)":[52],"uncover":[54],"potential":[55],"combing":[59],"feature":[60,70,86,105,117],"dimensionality":[61,106],"reduction":[62,107],"ensemble":[64],"learning.":[65],"First,":[66],"we":[67,78,164,212],"constructed":[68,138],"different":[69],"subsets":[71,87,118],"both":[73],"SMs":[74],"miRNAs.":[76],"Then,":[77],"trained":[79],"homogeneous":[80],"base":[81,97,128],"learners":[82,98],"based":[83,178],"on":[84,179],"distinct":[85],"took":[89],"average":[91],"scores":[93],"obtained":[94],"from":[95],"these":[96],"as":[99],"association":[101],"score.":[102],"In":[103],"EKRRSMMA,":[104,163],"technology":[108],"was":[109,132],"employed":[110],"process":[113],"construction":[115],"reduce":[120],"influence":[122],"noisy":[124],"data.":[125],"Besides,":[126,211],"learner,":[129],"namely":[130],"KRR_avg,":[131],"combination":[134],"two":[136,180],"classifiers":[137],"under":[139],"SM":[140,154],"space":[141],"miRNA":[143],"space,":[144],"could":[146],"make":[147],"full":[148],"use":[149],"information":[152],"miRNA.":[156],"To":[157],"assess":[158],"performance":[161],"conducted":[165,213],"Leave-One-Out":[166],"Cross-Validation":[167],"(LOOCV),":[168],"SM-fixed":[169],"local":[170,173],"LOOCV,":[171],"miRNA-fixed":[172],"LOOCV":[174],"5-fold":[176],"CV":[177],"datasets.":[181],"For":[182],"Dataset":[183],"1":[184],"(Dataset":[185],"2),":[186],"EKRRSMMA":[187,249],"got":[188],"Area":[190],"Under":[191],"receiver":[192],"operating":[193],"characteristic":[194],"Curves":[195],"(AUCs)":[196],"0.9793":[198],"(0.8871),":[199],"0.8071":[200],"(0.7705),":[201],"0.9732":[202],"(0.8586)":[203],"0.9767":[205],"\u00b1":[206,209],"0.0014":[207],"(0.8560":[208],"0.0027).":[210],"four":[214],"case":[215],"studies.":[216],"As":[217],"a":[218],"result,":[219],"32":[220],"(5-Fluorouracil),":[221],"19":[222],"(17\u03b2-Estradiol),":[223],"26":[224],"(5-Aza-2'-deoxycytidine)":[225],"11":[227],"(cyclophosphamide)":[228],"out":[229],"top":[231],"50":[232],"predicted":[233],"potentially":[234],"associated":[235],"miRNAs":[236],"were":[237],"confirmed":[238],"database":[240],"or":[241],"experimental":[242],"literature.":[243],"Above":[244],"evaluation":[245],"results":[246],"demonstrated":[247],"reliable":[251],"predicting":[253],"associations.":[255]},"counts_by_year":[{"year":2026,"cited_by_count":4},{"year":2025,"cited_by_count":15},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":14},{"year":2022,"cited_by_count":11}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
