{"id":"https://openalex.org/W4406261159","doi":"https://doi.org/10.1109/bibm62325.2024.10822375","title":"Partition, Predict and Assemble: Targeting Long RNA Secondary Structure Prediction","display_name":"Partition, Predict and Assemble: Targeting Long RNA Secondary Structure Prediction","publication_year":2024,"publication_date":"2024-12-03","ids":{"openalex":"https://openalex.org/W4406261159","doi":"https://doi.org/10.1109/bibm62325.2024.10822375"},"language":"en","primary_location":{"id":"doi:10.1109/bibm62325.2024.10822375","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822375","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5055305202","display_name":"Xiaoya Fan","orcid":"https://orcid.org/0000-0002-5002-6968"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiaoya Fan","raw_affiliation_strings":["Dalian University of Technology,School of Software,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,School of Software,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":null,"display_name":"Yuming Cui","orcid":null},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yuming Cui","raw_affiliation_strings":["Dalian University of Technology,School of Software,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,School of Software,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073799091","display_name":"Zheng Zhao","orcid":"https://orcid.org/0000-0002-4214-8164"},"institutions":[{"id":"https://openalex.org/I43313876","display_name":"Dalian Maritime University","ror":"https://ror.org/002b7nr53","country_code":"CN","type":"education","lineage":["https://openalex.org/I43313876"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zheng Zhao","raw_affiliation_strings":["Dalian Maritime University,School of Artificial Intelligence,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian Maritime University,School of Artificial Intelligence,Dalian,China","institution_ids":["https://openalex.org/I43313876"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009588567","display_name":"Zengyou He","orcid":"https://orcid.org/0000-0001-9526-8816"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zengyou He","raw_affiliation_strings":["Dalian University of Technology,School of Software,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,School of Software,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100365846","display_name":"Qi Zhao","orcid":"https://orcid.org/0000-0002-7981-9478"},"institutions":[{"id":"https://openalex.org/I9224756","display_name":"Northeastern University","ror":"https://ror.org/03awzbc87","country_code":"CN","type":"education","lineage":["https://openalex.org/I9224756"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qi Zhao","raw_affiliation_strings":["Northeastern University,School of Medicine and Biological Information Engineering,Shenyang,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northeastern University,School of Medicine and Biological Information Engineering,Shenyang,China","institution_ids":["https://openalex.org/I9224756"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100435261","display_name":"Zhong Wang","orcid":"https://orcid.org/0000-0001-8399-2575"},"institutions":[{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhong Wang","raw_affiliation_strings":["Dalian University of Technology,School of Software,Dalian,China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian University of Technology,School of Software,Dalian,China","institution_ids":["https://openalex.org/I27357992"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.33332338,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"172","last_page":"176"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9952999949455261,"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":0.9952999949455261,"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/T10604","display_name":"RNA Research and Splicing","score":0.9771999716758728,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9642000198364258,"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/partition","display_name":"Partition (number theory)","score":0.6080225706100464},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.45360952615737915},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.42332300543785095},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38056156039237976},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1942274570465088},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.17945149540901184},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.08912324905395508},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.07514527440071106},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.07145002484321594}],"concepts":[{"id":"https://openalex.org/C42812","wikidata":"https://www.wikidata.org/wiki/Q1082910","display_name":"Partition (number theory)","level":2,"score":0.6080225706100464},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.45360952615737915},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.42332300543785095},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38056156039237976},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1942274570465088},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.17945149540901184},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.08912324905395508},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.07514527440071106},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.07145002484321594}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm62325.2024.10822375","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm62325.2024.10822375","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","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":33,"referenced_works":["https://openalex.org/W1901129140","https://openalex.org/W1980410097","https://openalex.org/W2000191287","https://openalex.org/W2002712867","https://openalex.org/W2025763720","https://openalex.org/W2041391522","https://openalex.org/W2041882488","https://openalex.org/W2056655623","https://openalex.org/W2086561953","https://openalex.org/W2098571862","https://openalex.org/W2102017611","https://openalex.org/W2141601045","https://openalex.org/W2156607060","https://openalex.org/W2159548583","https://openalex.org/W2162224067","https://openalex.org/W2170747616","https://openalex.org/W2514258009","https://openalex.org/W2536860838","https://openalex.org/W2759571676","https://openalex.org/W2799989945","https://openalex.org/W2808896479","https://openalex.org/W2899798803","https://openalex.org/W2951298881","https://openalex.org/W2954102902","https://openalex.org/W2986044609","https://openalex.org/W2990528340","https://openalex.org/W3104537585","https://openalex.org/W3126773939","https://openalex.org/W3127238141","https://openalex.org/W4286255971","https://openalex.org/W4321210036","https://openalex.org/W4385245566","https://openalex.org/W6755207826"],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2899084033","https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W4391913857","https://openalex.org/W2358668433","https://openalex.org/W4396701345","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W4396696052"],"abstract_inverted_index":{"Accurately":[0],"predicting":[1],"the":[2,50,63,75,81,96,100,104],"secondary":[3,39,64,78,114,156],"structure":[4,40,65,115,157],"of":[5,66,103,110,133],"Non-coding":[6],"RNAs":[7],"is":[8],"crucial":[9],"for":[10,26,37,89,140,154,160],"understanding":[11],"their":[12],"biological":[13],"roles.":[14],"However,":[15],"current":[16],"methods":[17,117,135],"face":[18],"challenges":[19],"in":[20],"accuracy":[21],"and":[22,45,69,119,165],"computational":[23],"efficiency,":[24],"particularly":[25,159],"long":[27,141,161],"RNA":[28,38,51,77,90,97,113,121,137,155,162],"sequences.":[29,142,163],"Here,":[30],"we":[31,84],"present":[32],"a":[33,87,130],"novel":[34],"three-step":[35],"framework":[36,147,153],"prediction,":[41,158],"PPA":[42,82,146],"(Partition,":[43],"Predict,":[44],"Assemble).":[46],"It":[47],"first":[48],"partitions":[49],"sequence":[52,98],"into":[53],"independent":[54],"fragments":[55],"based":[56],"on":[57],"exterior":[58,91],"loops,":[59],"then":[60],"independently":[61],"predicts":[62],"each":[67],"fragment,":[68],"finally":[70],"assembles":[71],"them":[72],"to":[73],"construct":[74],"complete":[76],"structure.":[79],"Following":[80],"framework,":[83],"introduce":[85],"ELPBert,":[86],"model":[88],"loop":[92],"prediction.":[93],"We":[94,143],"partition":[95,122],"at":[99,169],"central":[101],"nucleotide":[102],"predicted":[105],"exterior-loop":[106],"bases.":[107],"The":[108],"performance":[109],"six":[111],"state-of-the-art":[112],"prediction":[116],"with":[118,136],"without":[120],"using":[123],"our":[124,145],"ELPBert":[125],"were":[126],"compared.":[127],"Results":[128],"demonstrate":[129],"great":[131],"improvement":[132],"these":[134],"partition,":[138],"especially":[139],"believe":[144],"could":[148],"serve":[149],"as":[150],"an":[151],"universal":[152],"Data":[164],"code":[166],"are":[167],"provided":[168],"https://github.com/Kali-ym/PPAwithELPBert.":[170]},"counts_by_year":[],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
