{"id":"https://openalex.org/W4294992958","doi":"https://doi.org/10.1093/bib/bbac395","title":"iLoc-miRNA: extracellular/intracellular miRNA prediction using deep BiLSTM with attention mechanism","display_name":"iLoc-miRNA: extracellular/intracellular miRNA prediction using deep BiLSTM with attention mechanism","publication_year":2022,"publication_date":"2022-09-01","ids":{"openalex":"https://openalex.org/W4294992958","doi":"https://doi.org/10.1093/bib/bbac395","pmid":"https://pubmed.ncbi.nlm.nih.gov/36070864"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac395","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac395","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/A5073409235","display_name":"Zhao\u2010Yue Zhang","orcid":"https://orcid.org/0000-0002-4619-247X"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Zhao-Yue Zhang","raw_affiliation_strings":["Tsukuba Life Science Innovation Program, University of Tsukuba , Tsukuba 3058577, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Tsukuba Life Science Innovation Program, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100635305","display_name":"Ning Lin","orcid":"https://orcid.org/0000-0001-6374-8823"},"institutions":[{"id":"https://openalex.org/I4210134419","display_name":"Neusoft (China)","ror":"https://ror.org/02zc84r97","country_code":"CN","type":"company","lineage":["https://openalex.org/I4210134419"]},{"id":"https://openalex.org/I4400573292","display_name":"Chengdu Neusoft University","ror":"https://ror.org/04p9p1r69","country_code":null,"type":"education","lineage":["https://openalex.org/I4400573292"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lin Ning","raw_affiliation_strings":["School of Healthcare Technology, Chengdu Neusoft University , 611844, Chengdu, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Healthcare Technology, Chengdu Neusoft University , 611844, Chengdu, China","institution_ids":["https://openalex.org/I4210134419","https://openalex.org/I4400573292"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063256241","display_name":"Xiucai Ye","orcid":"https://orcid.org/0000-0002-5547-3919"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Xiucai Ye","raw_affiliation_strings":["Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan"],"raw_orcid":"https://orcid.org/0000-0002-5547-3919","affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070885025","display_name":"Yuhe R. Yang","orcid":"https://orcid.org/0000-0003-2321-4653"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yu-He Yang","raw_affiliation_strings":["Center for Information Biology, University of Electronic Science and Technology of China , Chengdu 610054, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Information Biology, University of Electronic Science and Technology of China , Chengdu 610054, China","institution_ids":["https://openalex.org/I150229711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043798091","display_name":"Yasunori Futamura","orcid":"https://orcid.org/0000-0001-9354-0118"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Yasunori Futamura","raw_affiliation_strings":["Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","Tsukuba Life Science Innovation Program, University of Tsukuba , Tsukuba 3058577, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"Tsukuba Life Science Innovation Program, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080813451","display_name":"Tetsuya Sakurai","orcid":"https://orcid.org/0000-0003-2046-8973"},"institutions":[{"id":"https://openalex.org/I146399215","display_name":"University of Tsukuba","ror":"https://ror.org/02956yf07","country_code":"JP","type":"education","lineage":["https://openalex.org/I146399215"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Tetsuya Sakurai","raw_affiliation_strings":["Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","Tsukuba Life Science Innovation Program, University of Tsukuba , Tsukuba 3058577, Japan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]},{"raw_affiliation_string":"Tsukuba Life Science Innovation Program, University of Tsukuba , Tsukuba 3058577, Japan","institution_ids":["https://openalex.org/I146399215"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5041539298","display_name":"Hao Lin","orcid":"https://orcid.org/0000-0001-6265-2862"},"institutions":[{"id":"https://openalex.org/I150229711","display_name":"University of Electronic Science and Technology of China","ror":"https://ror.org/04qr3zq92","country_code":"CN","type":"education","lineage":["https://openalex.org/I150229711"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Hao Lin","raw_affiliation_strings":["Center for Information Biology, University of Electronic Science and Technology of China , Chengdu 610054, China"],"raw_orcid":"https://orcid.org/0000-0001-6265-2862","affiliations":[{"raw_affiliation_string":"Center for Information Biology, University of Electronic Science and Technology of China , Chengdu 610054, China","institution_ids":["https://openalex.org/I150229711"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5041539298","https://openalex.org/A5063256241"],"corresponding_institution_ids":["https://openalex.org/I146399215","https://openalex.org/I150229711"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":5.2183,"has_fulltext":false,"cited_by_count":55,"citation_normalized_percentile":{"value":0.97023676,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":100},"biblio":{"volume":"23","issue":"5","first_page":null,"last_page":null},"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/T10062","display_name":"MicroRNA in disease regulation","score":0.9994999766349792,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9994000196456909,"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/mechanism","display_name":"Mechanism (biology)","score":0.7358697056770325},{"id":"https://openalex.org/keywords/microrna","display_name":"microRNA","score":0.7175788879394531},{"id":"https://openalex.org/keywords/intracellular","display_name":"Intracellular","score":0.6175484657287598},{"id":"https://openalex.org/keywords/extracellular","display_name":"Extracellular","score":0.594615638256073},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.49413779377937317},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.41077083349227905},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.37738046050071716},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2477037012577057},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24479153752326965},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.21679231524467468},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.11004230380058289},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07642081379890442}],"concepts":[{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.7358697056770325},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.7175788879394531},{"id":"https://openalex.org/C79879829","wikidata":"https://www.wikidata.org/wiki/Q5571762","display_name":"Intracellular","level":2,"score":0.6175484657287598},{"id":"https://openalex.org/C28406088","wikidata":"https://www.wikidata.org/wiki/Q5571762","display_name":"Extracellular","level":2,"score":0.594615638256073},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.49413779377937317},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.41077083349227905},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.37738046050071716},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2477037012577057},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24479153752326965},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.21679231524467468},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.11004230380058289},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07642081379890442},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","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":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000069550","descriptor_name":"Machine Learning","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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","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":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbac395","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac395","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:36070864","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36070864","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":[],"awards":[{"id":"https://openalex.org/G2616354820","display_name":null,"funder_award_id":"62102067","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6666475274","display_name":null,"funder_award_id":"JPMJPF2017","funder_id":"https://openalex.org/F4320320907","funder_display_name":"Japan Science and Technology Corporation"},{"id":"https://openalex.org/G7184098351","display_name":null,"funder_award_id":"JP22K12144","funder_id":"https://openalex.org/F4320334764","funder_display_name":"Japan Society for the Promotion of Science"}],"funders":[{"id":"https://openalex.org/F4320320907","display_name":"Japan Science and Technology Corporation","ror":"https://ror.org/00097mb19"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320334764","display_name":"Japan Society for the Promotion of Science","ror":"https://ror.org/00hhkn466"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":34,"referenced_works":["https://openalex.org/W2017426710","https://openalex.org/W2036178413","https://openalex.org/W2064675550","https://openalex.org/W2066775630","https://openalex.org/W2070495442","https://openalex.org/W2089346704","https://openalex.org/W2105694586","https://openalex.org/W2106637741","https://openalex.org/W2137665434","https://openalex.org/W2141549067","https://openalex.org/W2146461566","https://openalex.org/W2155688961","https://openalex.org/W2170747616","https://openalex.org/W2508362099","https://openalex.org/W2530597079","https://openalex.org/W2597655663","https://openalex.org/W2762716878","https://openalex.org/W2799341160","https://openalex.org/W2800366958","https://openalex.org/W2907789789","https://openalex.org/W2912216076","https://openalex.org/W2945715267","https://openalex.org/W2950503611","https://openalex.org/W3081856356","https://openalex.org/W3091905639","https://openalex.org/W3111567820","https://openalex.org/W3124828689","https://openalex.org/W3195918345","https://openalex.org/W3200638709","https://openalex.org/W4210567506","https://openalex.org/W6725105739","https://openalex.org/W6735377749","https://openalex.org/W6757608463","https://openalex.org/W6801555947"],"related_works":["https://openalex.org/W1984947713","https://openalex.org/W190756422","https://openalex.org/W4243524043","https://openalex.org/W4318357236","https://openalex.org/W2110998913","https://openalex.org/W2012001430","https://openalex.org/W2366595807","https://openalex.org/W1979534999","https://openalex.org/W2117551213","https://openalex.org/W2071562112"],"abstract_inverted_index":{"The":[0,154],"location":[1,85,117],"of":[2,48,57,62,114,169,178,186],"microRNAs":[3],"(miRNAs)":[4],"in":[5,10,20,31,44,72,118,159],"cells":[6],"determines":[7],"their":[8,68,88],"function":[9],"regulation":[11],"activity.":[12],"Studies":[13],"have":[14,50,79],"shown":[15],"that":[16,24,35,103],"miRNAs":[17,49,162],"are":[18,29,70],"stable":[19],"the":[21,32,55,58,109,123,135,148,176,184,187],"extracellular":[22,161],"environment":[23],"mediates":[25],"cell-to-cell":[26],"communication":[27],"and":[28,40,60,67,111,139],"located":[30],"intracellular":[33,164],"region":[34],"responds":[36],"to":[37,54,133,152,174],"cellular":[38],"stress":[39],"environmental":[41],"stimuli.":[42],"Though":[43],"situ":[45],"detection":[46],"techniques":[47],"made":[51],"great":[52],"contributions":[53],"study":[56],"localization":[59,66,124],"distribution":[61],"miRNAs,":[63],"miRNA":[64,83,115,137,179],"subcellular":[65,84,116,180],"role":[69],"still":[71,91],"progress.":[73],"Recently,":[74],"some":[75],"machine":[76],"learning-based":[77],"algorithms":[78],"been":[80],"designed":[81],"for":[82,108],"prediction,":[86],"but":[87],"performance":[89],"is":[90],"far":[92],"from":[93,163],"satisfactory.":[94],"Here,":[95],"we":[96,126],"present":[97],"a":[98,141,167,189],"new":[99],"data":[100],"partitioning":[101],"strategy":[102],"categorizes":[104],"functionally":[105],"similar":[106],"locations":[107],"precise":[110],"instructive":[112],"prediction":[113],"Homo":[119],"sapiens.":[120],"To":[121,182],"characterize":[122],"signals,":[125],"adopted":[127],"one-hot":[128],"encoding":[129],"with":[130,147],"post":[131],"padding":[132],"represent":[134],"whole":[136],"sequences,":[138],"proposed":[140],"deep":[142],"bidirectional":[143],"long":[144],"short-term":[145],"memory":[146],"multi-head":[149],"self-attention":[150],"algorithm":[151,155],"model.":[153],"showed":[156],"high":[157],"selectivity":[158],"distinguishing":[160],"miRNAs.":[165],"Moreover,":[166],"series":[168],"motif":[170],"analyses":[171],"were":[172],"performed":[173],"explore":[175],"mechanism":[177],"localization.":[181],"improve":[183],"convenience":[185],"model,":[188],"user-friendly":[190],"web":[191],"server":[192],"named":[193],"iLoc-miRNA":[194],"was":[195],"established":[196],"(http://iLoc-miRNA.lin-group.cn/).":[197]},"counts_by_year":[{"year":2025,"cited_by_count":11},{"year":2024,"cited_by_count":18},{"year":2023,"cited_by_count":23},{"year":2022,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
