{"id":"https://openalex.org/W2904497009","doi":"https://doi.org/10.1109/access.2018.2886569","title":"Branch Point Selection in RNA Splicing Using Deep Learning","display_name":"Branch Point Selection in RNA Splicing Using Deep Learning","publication_year":2018,"publication_date":"2018-12-13","ids":{"openalex":"https://openalex.org/W2904497009","doi":"https://doi.org/10.1109/access.2018.2886569","mag":"2904497009"},"language":"en","primary_location":{"id":"doi:10.1109/access.2018.2886569","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2018.2886569","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/8600701/08574900.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://ieeexplore.ieee.org/ielx7/6287639/8600701/08574900.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5035411361","display_name":"Iman Nazari","orcid":"https://orcid.org/0000-0002-2584-0909"},"institutions":[{"id":"https://openalex.org/I80611190","display_name":"Jeonbuk National University","ror":"https://ror.org/05q92br09","country_code":"KR","type":"education","lineage":["https://openalex.org/I80611190"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Iman Nazari","raw_affiliation_strings":["Department of Electronics and Information Engineering, Chonbuk National University, Jeonju, South Korea"],"raw_orcid":"https://orcid.org/0000-0002-2584-0909","affiliations":[{"raw_affiliation_string":"Department of Electronics and Information Engineering, Chonbuk National University, Jeonju, South Korea","institution_ids":["https://openalex.org/I80611190"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008953921","display_name":"Hilal Tayara","orcid":"https://orcid.org/0000-0001-5678-3479"},"institutions":[{"id":"https://openalex.org/I80611190","display_name":"Jeonbuk National University","ror":"https://ror.org/05q92br09","country_code":"KR","type":"education","lineage":["https://openalex.org/I80611190"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Hilal Tayara","raw_affiliation_strings":["Department of Electronics and Information Engineering, Chonbuk National University, Jeonju, South Korea"],"raw_orcid":"https://orcid.org/0000-0001-5678-3479","affiliations":[{"raw_affiliation_string":"Department of Electronics and Information Engineering, Chonbuk National University, Jeonju, South Korea","institution_ids":["https://openalex.org/I80611190"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5031342322","display_name":"Kil To Chong","orcid":"https://orcid.org/0000-0002-1952-0001"},"institutions":[{"id":"https://openalex.org/I80611190","display_name":"Jeonbuk National University","ror":"https://ror.org/05q92br09","country_code":"KR","type":"education","lineage":["https://openalex.org/I80611190"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Kil To Chong","raw_affiliation_strings":["Advanced Electronics and Information Research Center, Chonbuk National University, Jeonju, South Korea"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Advanced Electronics and Information Research Center, Chonbuk National University, Jeonju, South Korea","institution_ids":["https://openalex.org/I80611190"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I80611190"],"apc_list":{"value":1850,"currency":"USD","value_usd":1850},"apc_paid":{"value":1850,"currency":"USD","value_usd":1850},"fwci":3.1339,"has_fulltext":true,"cited_by_count":59,"citation_normalized_percentile":{"value":0.93129502,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"7","issue":null,"first_page":"1800","last_page":"1807"},"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/T10604","display_name":"RNA Research and Splicing","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":0.9994000196456909,"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/intron","display_name":"Intron","score":0.7085831165313721},{"id":"https://openalex.org/keywords/rna-splicing","display_name":"RNA splicing","score":0.6388990879058838},{"id":"https://openalex.org/keywords/spliceosome","display_name":"Spliceosome","score":0.5412139892578125},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5062910318374634},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.5005111694335938},{"id":"https://openalex.org/keywords/exon","display_name":"Exon","score":0.4948565363883972},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4857931137084961},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.47662413120269775},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.4489169716835022},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.448900431394577},{"id":"https://openalex.org/keywords/splice","display_name":"splice","score":0.4326918423175812},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.376714289188385},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.34877270460128784},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3467486500740051},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.29596245288848877}],"concepts":[{"id":"https://openalex.org/C94671646","wikidata":"https://www.wikidata.org/wiki/Q207551","display_name":"Intron","level":3,"score":0.7085831165313721},{"id":"https://openalex.org/C54458228","wikidata":"https://www.wikidata.org/wiki/Q237218","display_name":"RNA splicing","level":4,"score":0.6388990879058838},{"id":"https://openalex.org/C40000846","wikidata":"https://www.wikidata.org/wiki/Q915868","display_name":"Spliceosome","level":5,"score":0.5412139892578125},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5062910318374634},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.5005111694335938},{"id":"https://openalex.org/C36823959","wikidata":"https://www.wikidata.org/wiki/Q373027","display_name":"Exon","level":3,"score":0.4948565363883972},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4857931137084961},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.47662413120269775},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.4489169716835022},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.448900431394577},{"id":"https://openalex.org/C2780989783","wikidata":"https://www.wikidata.org/wiki/Q7578557","display_name":"splice","level":3,"score":0.4326918423175812},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.376714289188385},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.34877270460128784},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3467486500740051},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.29596245288848877}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/access.2018.2886569","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2018.2886569","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/8600701/08574900.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:bc75240d65db4307b4b3c07a23baf347","is_oa":true,"landing_page_url":"https://doaj.org/article/bc75240d65db4307b4b3c07a23baf347","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE Access, Vol 7, Pp 1800-1807 (2019)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1109/access.2018.2886569","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2018.2886569","pdf_url":"https://ieeexplore.ieee.org/ielx7/6287639/8600701/08574900.pdf","source":{"id":"https://openalex.org/S2485537415","display_name":"IEEE Access","issn_l":"2169-3536","issn":["2169-3536"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.44999998807907104,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G2134140259","display_name":null,"funder_award_id":"NRF-2017M3C7A1044815","funder_id":"https://openalex.org/F4320320671","funder_display_name":"National Research Foundation"},{"id":"https://openalex.org/G2833317907","display_name":null,"funder_award_id":"NRF-2017M3C7A1044815","funder_id":"https://openalex.org/F4320328359","funder_display_name":"Ministry of Science and ICT, South Korea"},{"id":"https://openalex.org/G7319131549","display_name":null,"funder_award_id":"NRF-2017M3C7A1044815","funder_id":"https://openalex.org/F4320322120","funder_display_name":"National Research Foundation of Korea"}],"funders":[{"id":"https://openalex.org/F4320320671","display_name":"National Research Foundation","ror":"https://ror.org/05s0g1g46"},{"id":"https://openalex.org/F4320322120","display_name":"National Research Foundation of Korea","ror":"https://ror.org/013aysd81"},{"id":"https://openalex.org/F4320328359","display_name":"Ministry of Science and ICT, South Korea","ror":"https://ror.org/01wpjm123"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2904497009.pdf","grobid_xml":"https://content.openalex.org/works/W2904497009.grobid-xml"},"referenced_works_count":31,"referenced_works":["https://openalex.org/W1665214252","https://openalex.org/W1836465849","https://openalex.org/W1980274512","https://openalex.org/W1981963956","https://openalex.org/W2002969314","https://openalex.org/W2005708641","https://openalex.org/W2029641872","https://openalex.org/W2039864847","https://openalex.org/W2064675550","https://openalex.org/W2079735306","https://openalex.org/W2086561953","https://openalex.org/W2089891619","https://openalex.org/W2099652228","https://openalex.org/W2106578986","https://openalex.org/W2127471603","https://openalex.org/W2136016850","https://openalex.org/W2145191876","https://openalex.org/W2148393113","https://openalex.org/W2154866190","https://openalex.org/W2155058144","https://openalex.org/W2562878668","https://openalex.org/W2752914497","https://openalex.org/W2765584677","https://openalex.org/W2772171743","https://openalex.org/W2799994822","https://openalex.org/W2896699990","https://openalex.org/W2952587893","https://openalex.org/W2963840672","https://openalex.org/W6637242042","https://openalex.org/W6698200468","https://openalex.org/W6731298883"],"related_works":["https://openalex.org/W2106965934","https://openalex.org/W4394936167","https://openalex.org/W2052156526","https://openalex.org/W2966937658","https://openalex.org/W2129550649","https://openalex.org/W2134366891","https://openalex.org/W1998419287","https://openalex.org/W1985991078","https://openalex.org/W3176591804","https://openalex.org/W2519721647"],"abstract_inverted_index":{"Alternative":[0],"splicing":[1],"(AS)":[2],"is":[3,25,99],"a":[4,15,28,37,120,129,134],"regulated":[5],"process":[6],"that":[7,52],"takes":[8],"place":[9],"during":[10],"gene":[11,17,38],"expression":[12],"by":[13,27,32,227],"which":[14,33],"single":[16],"may":[18,39],"code":[19],"for":[20,186,208,251],"multiple":[21],"proteins.":[22],"This":[23],"mechanism":[24],"controlled":[26],"complex":[29],"called":[30],"spliceosome":[31],"certain":[34],"exons":[35],"of":[36,136,193,215],"be":[40],"included":[41],"in":[42,62],"or":[43],"excluded":[44],"out":[45],"from":[46,51,107],"the":[47,71,82,108,115,149,176,182,187,194,200,209,228,234],"final":[48],"mRNA":[49],"produced":[50],"gene.":[53],"In":[54,110,220],"AS,":[55],"at":[56,101],"least":[57],"three":[58],"remarkable":[59],"signals":[60],"exist":[61],"introns":[63],"and":[64,92,141,161,174,191,199,213,217,231],"they":[65],"are":[66,77,88],"5\u2019":[67],"splice":[68],"site":[69,98],"(5\u2019ss),":[70],"donor":[72],"ss":[73,84],"where":[74,85],"GU":[75],"nucleotides":[76,87,105],"more":[78,89],"frequently":[79,90],"present,":[80,91],"3\u2019ss,":[81],"acceptor":[83],"AG":[86],"branch":[93,96,116,241],"site.":[94],"Generally,":[95],"point":[97,117,242],"located":[100],"20":[102],"to":[103,148],"50":[104],"upstream":[106],"3\u2019ss.":[109],"this":[111],"paper,":[112],"we":[113],"identify":[114],"location":[118],"using":[119],"computational":[121],"model":[122,131,165,184,230],"based":[123,132],"on":[124,133,169],"deep":[125],"learning.":[126],"We":[127],"propose":[128],"hybrid":[130],"combination":[135],"dilated":[137],"convolution":[138],"neural":[139,143],"network":[140],"recurrent":[142],"network.":[144],"Integrating":[145],"additional":[146],"inputs":[147],"raw":[150],"RNA":[151,240],"sequence":[152],"has":[153,166,248],"been":[154,167,225,249],"studied":[155,226],"such":[156],"as":[157],"conservation,":[158],"binding":[159],"energy,":[160],"di-nucleotide.":[162],"The":[163],"proposed":[164,183,229],"evaluated":[168],"two":[170],"publicly":[171],"available":[172],"datasets":[173],"outperformed":[175],"current":[177],"state-of-the-art":[178],"methods.":[179],"More":[180],"specifically,":[181],"achieved":[185],"first":[188],"dataset":[189,211],"97.29%":[190],"67.08%":[192],"area":[195,201],"under":[196,202],"curve":[197,205],"(ROC-AUC)":[198],"precision":[203],"recall":[204],"(prAUC),":[206],"respectively,":[207],"second":[210],"96.86%":[212],"69.62%":[214],"ROC-AUC":[216],"prAUC,":[218],"respectively.":[219],"addition,":[221],"pathogenic":[222],"variants":[223],"have":[224],"agreed":[232],"with":[233],"reported":[235],"ones":[236],"biologically.":[237],"To":[238],"study":[239],"selection,":[243],"an":[244],"easy-to-use":[245],"Web":[246],"server":[247],"established":[250],"free":[252],"access":[253],"at:https://home.jbnu.ac.kr/NSCL/rnabps.htm.":[254]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":5},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":18},{"year":2019,"cited_by_count":13},{"year":2018,"cited_by_count":1}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
