{"id":"https://openalex.org/W4307496994","doi":"https://doi.org/10.1093/bib/bbac470","title":"Multi-model predictive analysis of RNA solvent accessibility based on modified residual attention mechanism","display_name":"Multi-model predictive analysis of RNA solvent accessibility based on modified residual attention mechanism","publication_year":2022,"publication_date":"2022-10-27","ids":{"openalex":"https://openalex.org/W4307496994","doi":"https://doi.org/10.1093/bib/bbac470","pmid":"https://pubmed.ncbi.nlm.nih.gov/36305428"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbac470","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac470","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/A5001148624","display_name":"Yu\u2010Yao Huang","orcid":"https://orcid.org/0000-0002-4501-6140"},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuyao Huang","raw_affiliation_strings":["College of Chemistry, Sichuan University , Chengdu, Sichuan, 610065, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Chemistry, Sichuan University , Chengdu, Sichuan, 610065, China","institution_ids":["https://openalex.org/I24185976"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061944036","display_name":"Jiesi Luo","orcid":"https://orcid.org/0000-0002-1199-7024"},"institutions":[{"id":"https://openalex.org/I3017480383","display_name":"Southwest Medical University","ror":"https://ror.org/00g2rqs52","country_code":"CN","type":"healthcare","lineage":["https://openalex.org/I3017480383"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jiesi Luo","raw_affiliation_strings":["Department of Pharmacology, School of Pharmacy, Southwest Medical University , Luzhou, Sichuan, 646000, China"],"raw_orcid":"https://orcid.org/0000-0002-1199-7024","affiliations":[{"raw_affiliation_string":"Department of Pharmacology, School of Pharmacy, Southwest Medical University , Luzhou, Sichuan, 646000, China","institution_ids":["https://openalex.org/I3017480383"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063197812","display_name":"Runyu Jing","orcid":"https://orcid.org/0000-0003-3375-1014"},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Runyu Jing","raw_affiliation_strings":["School of Cyber Science and Engineering, Sichuan University , Chengdu, Sichuan, 610065, China"],"raw_orcid":"https://orcid.org/0000-0003-3375-1014","affiliations":[{"raw_affiliation_string":"School of Cyber Science and Engineering, Sichuan University , Chengdu, Sichuan, 610065, China","institution_ids":["https://openalex.org/I24185976"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100703866","display_name":"Menglong Li","orcid":"https://orcid.org/0000-0001-7365-0344"},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Menglong Li","raw_affiliation_strings":["College of Chemistry, Sichuan University , Chengdu, Sichuan, 610065, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Chemistry, Sichuan University , Chengdu, Sichuan, 610065, China","institution_ids":["https://openalex.org/I24185976"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5063197812","https://openalex.org/A5100703866"],"corresponding_institution_ids":["https://openalex.org/I24185976"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":0.0783,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.38802504,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"23","issue":"6","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","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"}},"topics":[{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","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/T11482","display_name":"RNA modifications and cancer","score":0.9966999888420105,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9937999844551086,"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/interpretability","display_name":"Interpretability","score":0.825959324836731},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6827001571655273},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6816187500953674},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.583556592464447},{"id":"https://openalex.org/keywords/hyperparameter","display_name":"Hyperparameter","score":0.5548104047775269},{"id":"https://openalex.org/keywords/residual","display_name":"Residual","score":0.5342551469802856},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.5141366124153137},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5134647488594055},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4486624002456665},{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.42807698249816895},{"id":"https://openalex.org/keywords/mechanism","display_name":"Mechanism (biology)","score":0.4169577658176422},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4022494852542877},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.2241632342338562},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.10817661881446838},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.08460685610771179}],"concepts":[{"id":"https://openalex.org/C2781067378","wikidata":"https://www.wikidata.org/wiki/Q17027399","display_name":"Interpretability","level":2,"score":0.825959324836731},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6827001571655273},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6816187500953674},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.583556592464447},{"id":"https://openalex.org/C8642999","wikidata":"https://www.wikidata.org/wiki/Q4171168","display_name":"Hyperparameter","level":2,"score":0.5548104047775269},{"id":"https://openalex.org/C155512373","wikidata":"https://www.wikidata.org/wiki/Q287450","display_name":"Residual","level":2,"score":0.5342551469802856},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.5141366124153137},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5134647488594055},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4486624002456665},{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.42807698249816895},{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.4169577658176422},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4022494852542877},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.2241632342338562},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.10817661881446838},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.08460685610771179},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","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},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012997","descriptor_name":"Solvents","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012997","descriptor_name":"Solvents","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D012997","descriptor_name":"Solvents","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bib/bbac470","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bib/bbac470","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:36305428","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36305428","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/G8705718322","display_name":null,"funder_award_id":"22173065","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":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":30,"referenced_works":["https://openalex.org/W98560264","https://openalex.org/W1968454620","https://openalex.org/W1995785876","https://openalex.org/W2003993220","https://openalex.org/W2004360551","https://openalex.org/W2055043387","https://openalex.org/W2064675550","https://openalex.org/W2155626763","https://openalex.org/W2156125289","https://openalex.org/W2548501546","https://openalex.org/W2607268717","https://openalex.org/W2896704238","https://openalex.org/W2898320067","https://openalex.org/W2900553889","https://openalex.org/W2905446269","https://openalex.org/W2950954328","https://openalex.org/W2951149542","https://openalex.org/W3044821682","https://openalex.org/W3093994104","https://openalex.org/W3095370870","https://openalex.org/W3177828909","https://openalex.org/W3198630169","https://openalex.org/W3206281125","https://openalex.org/W4220832915","https://openalex.org/W4234552385","https://openalex.org/W4239510810","https://openalex.org/W4254401858","https://openalex.org/W4385245566","https://openalex.org/W6739901393","https://openalex.org/W7075630220"],"related_works":["https://openalex.org/W4229079080","https://openalex.org/W4206534706","https://openalex.org/W4295309597","https://openalex.org/W4205364923","https://openalex.org/W3012234327","https://openalex.org/W4210794429","https://openalex.org/W3006943036","https://openalex.org/W3191046242","https://openalex.org/W4294031299","https://openalex.org/W3119715496"],"abstract_inverted_index":{"Predicting":[0],"RNA":[1,22,48,71,127],"solvent":[2,23],"accessibility":[3,24],"using":[4,56,131],"only":[5],"primary":[6],"sequence":[7,108],"data":[8],"can":[9],"be":[10,118],"regarded":[11,103],"as":[12,109],"sequence-based":[13,21,54],"prediction":[14,25,129],"work.":[15],"Currently,":[16],"the":[17,30,46,67,75,84,89,100,104,112,135],"established":[18],"studies":[19],"for":[20,120],"are":[26],"limited":[27],"due":[28],"to":[29,64,66,125],"available":[31,47],"number":[32],"of":[33,70,106],"datasets":[34],"and":[35,50,81,94],"black":[36],"box":[37],"prediction.":[38],"To":[39],"improve":[40],"these":[41],"issues,":[42],"we":[43,97],"first":[44],"expanded":[45],"structures":[49],"then":[51],"developed":[52,101],"a":[53,107],"model":[55,90,102],"modified":[57],"attention":[58,92],"layers":[59],"with":[60,77],"different":[61],"receptive":[62],"fields":[63],"conform":[65],"stem-loop":[68],"structure":[69],"chains.":[72],"We":[73],"measured":[74],"improvement":[76],"an":[78],"extended":[79],"dataset":[80],"further":[82],"explored":[83],"model's":[85],"interpretability":[86],"by":[87],"analysing":[88],"structures,":[91],"values":[93],"hyperparameters.":[95],"Finally,":[96],"found":[98],"that":[99],"pieces":[105],"templates":[110],"during":[111],"training":[113],"process.":[114],"This":[115],"work":[116],"will":[117],"helpful":[119],"researchers":[121],"who":[122],"would":[123],"like":[124],"build":[126],"attribute":[128],"models":[130],"deep":[132],"learning":[133],"in":[134],"future.":[136]},"counts_by_year":[{"year":2023,"cited_by_count":1}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}
