{"id":"https://openalex.org/W2101852192","doi":"https://doi.org/10.1093/bioinformatics/btt218","title":"Poly(A) motif prediction using spectral latent features from human DNA sequences","display_name":"Poly(A) motif prediction using spectral latent features from human DNA sequences","publication_year":2013,"publication_date":"2013-06-19","ids":{"openalex":"https://openalex.org/W2101852192","doi":"https://doi.org/10.1093/bioinformatics/btt218","mag":"2101852192","pmid":"https://pubmed.ncbi.nlm.nih.gov/23813000"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt218","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt218","pdf_url":null,"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":"green","oa_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3694652","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101508695","display_name":"Bo Xie","orcid":"https://orcid.org/0000-0003-0458-4202"},"institutions":[{"id":"https://openalex.org/I130701444","display_name":"Georgia Institute of Technology","ror":"https://ror.org/01zkghx44","country_code":"US","type":"education","lineage":["https://openalex.org/I130701444"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Bo Xie","raw_affiliation_strings":["College of Computing, Georgia Institute of Technology, Atlanta, GA 30332, USA","College of Computing, Georgia Institute of Technology, Atlanta, GA 30332 USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Computing, Georgia Institute of Technology, Atlanta, GA 30332, USA","institution_ids":["https://openalex.org/I130701444"]},{"raw_affiliation_string":"College of Computing, Georgia Institute of Technology, Atlanta, GA 30332 USA","institution_ids":["https://openalex.org/I130701444"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001438860","display_name":"Boris R. Jankovi\u0107","orcid":"https://orcid.org/0000-0003-1868-6007"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Boris R. Jankovic","raw_affiliation_strings":["King Abdullah University of Science and Technology, Jeddah, Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"King Abdullah University of Science and Technology, Jeddah, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055569646","display_name":"Vladimir B. Baji\u0107","orcid":"https://orcid.org/0000-0001-5435-4750"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Vladimir B. Bajic","raw_affiliation_strings":["King Abdullah University of Science and Technology, Jeddah, Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"King Abdullah University of Science and Technology, Jeddah, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5030589527","display_name":"Le Song","orcid":"https://orcid.org/0000-0002-9655-2787"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Le Song","raw_affiliation_strings":["King Abdullah University of Science and Technology, Jeddah, Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"King Abdullah University of Science and Technology, Jeddah, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100618900","display_name":"Xin Gao","orcid":"https://orcid.org/0000-0002-7108-3574"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Xin Gao","raw_affiliation_strings":["King Abdullah University of Science and Technology, Jeddah, Saudi Arabia"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"King Abdullah University of Science and Technology, Jeddah, Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5101508695"],"corresponding_institution_ids":["https://openalex.org/I130701444"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.4955,"has_fulltext":false,"cited_by_count":56,"citation_normalized_percentile":{"value":0.82258793,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"29","issue":"13","first_page":"i316","last_page":"i325"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.9659000039100647,"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":0.9659000039100647,"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":0.009700000286102295,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.006399999838322401,"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/discriminative-model","display_name":"Discriminative model","score":0.7390808463096619},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.6954284906387329},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6438409686088562},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.5844520926475525},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.5709717869758606},{"id":"https://openalex.org/keywords/generative-model","display_name":"Generative model","score":0.5478111505508423},{"id":"https://openalex.org/keywords/polyadenylation","display_name":"Polyadenylation","score":0.47732430696487427},{"id":"https://openalex.org/keywords/support-vector-machine","display_name":"Support vector machine","score":0.47058621048927307},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4611284136772156},{"id":"https://openalex.org/keywords/sequence-motif","display_name":"Sequence motif","score":0.4386412501335144},{"id":"https://openalex.org/keywords/markov-chain","display_name":"Markov chain","score":0.4304211139678955},{"id":"https://openalex.org/keywords/feature-engineering","display_name":"Feature engineering","score":0.4169301986694336},{"id":"https://openalex.org/keywords/generative-grammar","display_name":"Generative grammar","score":0.38562294840812683},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.29133492708206177},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.20326068997383118},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15654975175857544},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.15389296412467957},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.1121174693107605},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.0877884030342102}],"concepts":[{"id":"https://openalex.org/C97931131","wikidata":"https://www.wikidata.org/wiki/Q5282087","display_name":"Discriminative model","level":2,"score":0.7390808463096619},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.6954284906387329},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6438409686088562},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.5844520926475525},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.5709717869758606},{"id":"https://openalex.org/C167966045","wikidata":"https://www.wikidata.org/wiki/Q5532625","display_name":"Generative model","level":3,"score":0.5478111505508423},{"id":"https://openalex.org/C142575336","wikidata":"https://www.wikidata.org/wiki/Q412148","display_name":"Polyadenylation","level":4,"score":0.47732430696487427},{"id":"https://openalex.org/C12267149","wikidata":"https://www.wikidata.org/wiki/Q282453","display_name":"Support vector machine","level":2,"score":0.47058621048927307},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4611284136772156},{"id":"https://openalex.org/C117745874","wikidata":"https://www.wikidata.org/wiki/Q901612","display_name":"Sequence motif","level":3,"score":0.4386412501335144},{"id":"https://openalex.org/C98763669","wikidata":"https://www.wikidata.org/wiki/Q176645","display_name":"Markov chain","level":2,"score":0.4304211139678955},{"id":"https://openalex.org/C2778827112","wikidata":"https://www.wikidata.org/wiki/Q22245680","display_name":"Feature engineering","level":3,"score":0.4169301986694336},{"id":"https://openalex.org/C39890363","wikidata":"https://www.wikidata.org/wiki/Q36108","display_name":"Generative grammar","level":2,"score":0.38562294840812683},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.29133492708206177},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.20326068997383118},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15654975175857544},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.15389296412467957},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.1121174693107605},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0877884030342102}],"mesh":[{"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":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D001185","descriptor_name":"Artificial Intelligence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011061","descriptor_name":"Poly A","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011061","descriptor_name":"Poly A","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D011061","descriptor_name":"Poly A","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020413","descriptor_name":"3' Untranslated Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020413","descriptor_name":"3' Untranslated Regions","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020413","descriptor_name":"3' Untranslated Regions","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":false},{"descriptor_ui":"D026723","descriptor_name":"Polyadenylation","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":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059372","descriptor_name":"Nucleotide Motifs","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060388","descriptor_name":"Support Vector Machine","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btt218","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt218","pdf_url":null,"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:23813000","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23813000","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:oai:europepmc.org:2688175","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC3694652","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3694652","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3694652","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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"},{"id":"pmh:oai:repository.kaust.edu.sa:10754/325438","is_oa":true,"landing_page_url":"http://hdl.handle.net/10754/325438","pdf_url":null,"source":{"id":"https://openalex.org/S4306401596","display_name":"King Abdullah University of Science and Technology Repository (King Abdullah University of Science and Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I71920554","host_organization_name":"King Abdullah University of Science and Technology","host_organization_lineage":["https://openalex.org/I71920554"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":{"id":"pmh:oai:pubmedcentral.nih.gov:3694652","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3694652","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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"},"sustainable_development_goals":[{"score":0.6499999761581421,"id":"https://metadata.un.org/sdg/10","display_name":"Reduced inequalities"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":43,"referenced_works":["https://openalex.org/W82849906","https://openalex.org/W1542652324","https://openalex.org/W1770412798","https://openalex.org/W1825640910","https://openalex.org/W1978304080","https://openalex.org/W1997699426","https://openalex.org/W2000731859","https://openalex.org/W2020816856","https://openalex.org/W2027582332","https://openalex.org/W2030460047","https://openalex.org/W2036144270","https://openalex.org/W2039808953","https://openalex.org/W2046338307","https://openalex.org/W2049633694","https://openalex.org/W2050233629","https://openalex.org/W2063861171","https://openalex.org/W2097979901","https://openalex.org/W2099305989","https://openalex.org/W2099350714","https://openalex.org/W2099961908","https://openalex.org/W2105545925","https://openalex.org/W2105879579","https://openalex.org/W2111765516","https://openalex.org/W2129429612","https://openalex.org/W2140006817","https://openalex.org/W2140303894","https://openalex.org/W2141572089","https://openalex.org/W2151531457","https://openalex.org/W2152737152","https://openalex.org/W2157485293","https://openalex.org/W2159554382","https://openalex.org/W2160053034","https://openalex.org/W2160741454","https://openalex.org/W2163900914","https://openalex.org/W2170960297","https://openalex.org/W2533703023","https://openalex.org/W2963018013","https://openalex.org/W3003413895","https://openalex.org/W4289258965","https://openalex.org/W4297168595","https://openalex.org/W6636975047","https://openalex.org/W6675325605","https://openalex.org/W6682443497"],"related_works":["https://openalex.org/W1976007281","https://openalex.org/W195216885","https://openalex.org/W1968152888","https://openalex.org/W2081082232","https://openalex.org/W4205787488","https://openalex.org/W2065213545","https://openalex.org/W2082559221","https://openalex.org/W2414745490","https://openalex.org/W2124120782","https://openalex.org/W2074164095"],"abstract_inverted_index":{"MOTIVATION:":[0],"Polyadenylation":[1],"is":[2,24],"the":[3,19,34,50,63,138,152,155,170,201,224,236,241,253,278,290,310],"addition":[4,20],"of":[5,21,33,39,54,72,88,142,154,217,223,228,235,292,307,313],"a":[6,67,109,133,210,305],"poly(A)":[7,22,42,56,114,213,230,298],"tail":[8],"to":[9,26,66,158,199,277,288],"an":[10,176],"RNA":[11],"molecule.":[12],"Identifying":[13],"DNA":[14,171],"sequence":[15,143,172],"motifs":[16,57,61,317],"that":[17,46,215,318],"signal":[18],"tails":[23],"essential":[25],"improved":[27],"genome":[28],"annotation":[29],"and":[30,37,83,100,124,140,174,259,265,294,315],"better":[31],"understanding":[32],"regulatory":[35],"mechanisms":[36],"stability":[38],"mRNA.":[40],"Existing":[41],"motif":[43,115],"predictors":[44],"demonstrate":[45],"information":[47,144,184],"extracted":[48],"from":[49,62,185,221,300],"surrounding":[51,311],"nucleotide":[52],"sequences":[53],"candidate":[55],"can":[58,97,101,145,285,303],"differentiate":[59],"true":[60,314],"false":[64,316],"ones":[65],"great":[68],"extent.":[69],"A":[70],"variety":[71],"sophisticated":[73],"features":[74,191],"has":[75],"been":[76,321],"explored,":[77],"including":[78],"sequential,":[79],"structural,":[80],"statistical,":[81],"thermodynamic":[82],"evolutionary":[84],"properties.":[85],"However,":[86],"most":[87,225],"these":[89,186],"methods":[90,239],"involve":[91],"extensive":[92],"manual":[93],"feature":[94],"engineering,":[95],"which":[96,137,301],"be":[98,146,159,286],"time-consuming":[99],"require":[102],"in-depth":[103],"domain":[104],"knowledge.":[105],"RESULTS:":[106],"We":[107,204],"propose":[108],"novel":[110],"machine-learning":[111],"method":[112,208,251,270,284],"for":[113,168,180],"prediction":[116],"by":[117,262],"marrying":[118],"generative":[119],"learning":[120,126,131,150],"(hidden":[121],"Markov":[122,166],"models)":[123],"discriminative":[125,149],"(support":[127],"vector":[128,197],"machines).":[129],"Generative":[130],"provides":[132],"rich":[134],"palette":[135],"on":[136,209],"uncertainty":[139],"diversity":[141],"handled,":[147],"while":[148],"allows":[151],"performance":[153],"classification":[156,202],"task":[157],"directly":[160],"optimized.":[161],"Here,":[162],"we":[163,302],"used":[164,287],"hidden":[165],"models":[167],"fitting":[169],"dynamics,":[173],"developed":[175],"efficient":[177],"spectral":[178,189],"algorithm":[179],"extracting":[181],"latent":[182,190],"variable":[183],"models.":[187],"These":[188],"were":[192],"then":[193],"fed":[194],"into":[195],"support":[196],"machines":[198],"fine-tune":[200],"performance.":[203],"evaluated":[205],"our":[206,250,269,283],"proposed":[207],"comprehensive":[211],"human":[212,229],"dataset":[214],"consists":[216],"14":[218],"740":[219],"samples":[220],"12":[222],"abundant":[226],"variants":[227],"motifs.":[231],"Compared":[232],"with":[233,247],"one":[234],"previous":[237],"state-of-the-art":[238],"in":[240,296,309],"literature":[242],"(the":[243],"random":[244],"forest":[245],"model":[246],"expert-crafted":[248],"features),":[249],"reduces":[252],"average":[254],"error":[255,274],"rate,":[256],"false-negative":[257],"rate":[258,261],"false-positive":[260],"26,":[263],"15":[264],"35%,":[266],"respectively.":[267],"Meanwhile,":[268],"makes":[271],"~30%":[272],"fewer":[273],"predictions":[275],"relative":[276],"other":[279],"string":[280],"kernels.":[281],"Furthermore,":[282],"visualize":[289],"importance":[291],"oligomers":[293],"positions":[295],"predicting":[297],"motifs,":[299],"observe":[304],"number":[306],"characteristics":[308],"regions":[312],"have":[319],"not":[320],"reported":[322],"before.":[323],"AVAILABILITY:":[324],"http://sfb.kaust.edu.sa/Pages/Software.aspx.":[325],"SUPPLEMENTARY":[326],"INFORMATION:":[327],"Supplementary":[328],"data":[329],"are":[330],"available":[331],"at":[332],"Bioinformatics":[333],"online.":[334]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":4},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":12},{"year":2021,"cited_by_count":5},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":7},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":1}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}