{"id":"https://openalex.org/W2940943632","doi":"https://doi.org/10.1093/bioinformatics/btz283","title":"DeepPASTA: deep neural network based polyadenylation site analysis","display_name":"DeepPASTA: deep neural network based polyadenylation site analysis","publication_year":2019,"publication_date":"2019-04-16","ids":{"openalex":"https://openalex.org/W2940943632","doi":"https://doi.org/10.1093/bioinformatics/btz283","mag":"2940943632","pmid":"https://pubmed.ncbi.nlm.nih.gov/31081512"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz283","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz283","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/22/4577/30706799/btz283.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/22/4577/30706799/btz283.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5005952933","display_name":"Ashraful Arefeen","orcid":"https://orcid.org/0000-0003-0275-9689"},"institutions":[{"id":"https://openalex.org/I103635307","display_name":"University of California, Riverside","ror":"https://ror.org/03nawhv43","country_code":"US","type":"education","lineage":["https://openalex.org/I103635307"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ashraful Arefeen","raw_affiliation_strings":["Department of Computer Science and Engineering, University of California , Riverside, CA 92521, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering, University of California , Riverside, CA 92521, USA","institution_ids":["https://openalex.org/I103635307"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065793559","display_name":"Xinshu Xiao","orcid":"https://orcid.org/0000-0002-9362-8029"},"institutions":[{"id":"https://openalex.org/I161318765","display_name":"University of California, Los Angeles","ror":"https://ror.org/046rm7j60","country_code":"US","type":"education","lineage":["https://openalex.org/I161318765"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Xinshu Xiao","raw_affiliation_strings":["Department of Integrative Biology and Physiology, University of California , Los Angeles, CA 90095, USA"],"affiliations":[{"raw_affiliation_string":"Department of Integrative Biology and Physiology, University of California , Los Angeles, CA 90095, USA","institution_ids":["https://openalex.org/I161318765"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101911266","display_name":"Tao Jiang","orcid":"https://orcid.org/0000-0003-3833-4498"},"institutions":[{"id":"https://openalex.org/I103635307","display_name":"University of California, Riverside","ror":"https://ror.org/03nawhv43","country_code":"US","type":"education","lineage":["https://openalex.org/I103635307"]},{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN","US"],"is_corresponding":true,"raw_author_name":"Tao Jiang","raw_affiliation_strings":["Bioinformatics Division, BNRIST, Department of Computer Science and Technology, Tsinghua University , Beijing 100084, China","Department of Computer Science and Engineering, University of California , Riverside, CA 92521, USA","Institute of Integrative Genome Biology, University of California , Riverside, CA 92521, USA"],"affiliations":[{"raw_affiliation_string":"Bioinformatics Division, BNRIST, Department of Computer Science and Technology, Tsinghua University , Beijing 100084, China","institution_ids":["https://openalex.org/I99065089"]},{"raw_affiliation_string":"Department of Computer Science and Engineering, University of California , Riverside, CA 92521, USA","institution_ids":["https://openalex.org/I103635307"]},{"raw_affiliation_string":"Institute of Integrative Genome Biology, University of California , Riverside, CA 92521, USA","institution_ids":["https://openalex.org/I103635307"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5065793559","https://openalex.org/A5101911266"],"corresponding_institution_ids":["https://openalex.org/I103635307","https://openalex.org/I161318765","https://openalex.org/I99065089"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":2.92,"has_fulltext":true,"cited_by_count":61,"citation_normalized_percentile":{"value":0.91878298,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":100},"biblio":{"volume":"35","issue":"22","first_page":"4577","last_page":"4585"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"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"}},"topics":[{"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":0.9998000264167786,"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":0.9983000159263611,"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/polyadenylation","display_name":"Polyadenylation","score":0.8652372360229492},{"id":"https://openalex.org/keywords/untranslated-region","display_name":"Untranslated region","score":0.623059093952179},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.613728404045105},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5812046527862549},{"id":"https://openalex.org/keywords/translation","display_name":"Translation (biology)","score":0.5228244066238403},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4872571527957916},{"id":"https://openalex.org/keywords/artificial-neural-network","display_name":"Artificial neural network","score":0.4489700496196747},{"id":"https://openalex.org/keywords/messenger-rna","display_name":"Messenger RNA","score":0.4461890459060669},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4461035132408142},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.44333305954933167},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.43373528122901917},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3045785427093506}],"concepts":[{"id":"https://openalex.org/C142575336","wikidata":"https://www.wikidata.org/wiki/Q412148","display_name":"Polyadenylation","level":4,"score":0.8652372360229492},{"id":"https://openalex.org/C89604277","wikidata":"https://www.wikidata.org/wiki/Q424345","display_name":"Untranslated region","level":4,"score":0.623059093952179},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.613728404045105},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5812046527862549},{"id":"https://openalex.org/C149364088","wikidata":"https://www.wikidata.org/wiki/Q185917","display_name":"Translation (biology)","level":4,"score":0.5228244066238403},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4872571527957916},{"id":"https://openalex.org/C50644808","wikidata":"https://www.wikidata.org/wiki/Q192776","display_name":"Artificial neural network","level":2,"score":0.4489700496196747},{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.4461890459060669},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4461035132408142},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.44333305954933167},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.43373528122901917},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3045785427093506}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011061","descriptor_name":"Poly A","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011061","descriptor_name":"Poly A","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011061","descriptor_name":"Poly A","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020413","descriptor_name":"3' Untranslated Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020413","descriptor_name":"3' Untranslated Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020413","descriptor_name":"3' Untranslated Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D026723","descriptor_name":"Polyadenylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D026723","descriptor_name":"Polyadenylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D026723","descriptor_name":"Polyadenylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btz283","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz283","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/22/4577/30706799/btz283.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31081512","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31081512","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:ark:/13030/qt1h2325d9","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:escholarship.org:ark:/13030/qt1h2325d9","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/1h2325d9","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, vol 35, iss 22","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:6853695","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6853695","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz283","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz283","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/22/4577/30706799/btz283.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1117163193","display_name":null,"funder_award_id":"IIS-1646333","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G2053945127","display_name":null,"funder_award_id":"U01HG009417","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G7131201080","display_name":null,"funder_award_id":"61370172","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2940943632.pdf","grobid_xml":"https://content.openalex.org/works/W2940943632.grobid-xml"},"referenced_works_count":58,"referenced_works":["https://openalex.org/W1019830208","https://openalex.org/W1588920293","https://openalex.org/W1663973292","https://openalex.org/W1920706031","https://openalex.org/W1951403192","https://openalex.org/W1997699426","https://openalex.org/W2015999110","https://openalex.org/W2032009534","https://openalex.org/W2059126678","https://openalex.org/W2064675550","https://openalex.org/W2073858449","https://openalex.org/W2080532845","https://openalex.org/W2083996291","https://openalex.org/W2087789109","https://openalex.org/W2089994683","https://openalex.org/W2095705004","https://openalex.org/W2099305989","https://openalex.org/W2099350714","https://openalex.org/W2103375140","https://openalex.org/W2112796928","https://openalex.org/W2115496564","https://openalex.org/W2118834857","https://openalex.org/W2129429612","https://openalex.org/W2131774270","https://openalex.org/W2136735223","https://openalex.org/W2136848157","https://openalex.org/W2140303894","https://openalex.org/W2142952635","https://openalex.org/W2147091948","https://openalex.org/W2151562469","https://openalex.org/W2151971476","https://openalex.org/W2159554382","https://openalex.org/W2163900914","https://openalex.org/W2165260680","https://openalex.org/W2171791048","https://openalex.org/W2178279848","https://openalex.org/W2198606573","https://openalex.org/W2221083434","https://openalex.org/W2339995329","https://openalex.org/W2345512687","https://openalex.org/W2525507785","https://openalex.org/W2594639291","https://openalex.org/W2799996237","https://openalex.org/W2902896987","https://openalex.org/W2903382683","https://openalex.org/W2949671734","https://openalex.org/W2950463913","https://openalex.org/W2950890882","https://openalex.org/W2952935243","https://openalex.org/W3029457946","https://openalex.org/W3104875710","https://openalex.org/W6635243895","https://openalex.org/W6640752903","https://openalex.org/W6674330103","https://openalex.org/W6685403772","https://openalex.org/W6751721516","https://openalex.org/W6756396893","https://openalex.org/W6764680637"],"related_works":["https://openalex.org/W1983255013","https://openalex.org/W2015305388","https://openalex.org/W4321790508","https://openalex.org/W2089191559","https://openalex.org/W2019349449","https://openalex.org/W1979133937","https://openalex.org/W4291964159","https://openalex.org/W1982959161","https://openalex.org/W2773320331","https://openalex.org/W2434831725"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":9},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":7},{"year":2022,"cited_by_count":16},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
