{"id":"https://openalex.org/W4312195221","doi":"https://doi.org/10.1093/bioinformatics/btac821","title":"Discovering misannotated lncRNAs using deep learning training dynamics","display_name":"Discovering misannotated lncRNAs using deep learning training dynamics","publication_year":2022,"publication_date":"2022-12-24","ids":{"openalex":"https://openalex.org/W4312195221","doi":"https://doi.org/10.1093/bioinformatics/btac821","pmid":"https://pubmed.ncbi.nlm.nih.gov/36571493"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btac821","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac821","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/1/btac821/48521782/btac821.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/39/1/btac821/48521782/btac821.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5035860954","display_name":"Afshan Nabi","orcid":"https://orcid.org/0000-0001-5760-7207"},"institutions":[{"id":"https://openalex.org/I134235054","display_name":"Sabanc\u0131 \u00dcniversitesi","ror":"https://ror.org/049asqa32","country_code":"TR","type":"education","lineage":["https://openalex.org/I134235054"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Afshan Nabi","raw_affiliation_strings":["Faculty of Engineering and Natural Sciences, Sabanci University , Istanbul 34956, Turkey"],"affiliations":[{"raw_affiliation_string":"Faculty of Engineering and Natural Sciences, Sabanci University , Istanbul 34956, Turkey","institution_ids":["https://openalex.org/I134235054"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010123764","display_name":"Berke Dilekoglu","orcid":"https://orcid.org/0000-0001-7918-5543"},"institutions":[{"id":"https://openalex.org/I134235054","display_name":"Sabanc\u0131 \u00dcniversitesi","ror":"https://ror.org/049asqa32","country_code":"TR","type":"education","lineage":["https://openalex.org/I134235054"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Berke Dilekoglu","raw_affiliation_strings":["Faculty of Engineering and Natural Sciences, Sabanci University , Istanbul 34956, Turkey"],"affiliations":[{"raw_affiliation_string":"Faculty of Engineering and Natural Sciences, Sabanci University , Istanbul 34956, Turkey","institution_ids":["https://openalex.org/I134235054"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036514234","display_name":"Og\u00fcn Adebal\u0131","orcid":"https://orcid.org/0000-0001-9213-4070"},"institutions":[{"id":"https://openalex.org/I134235054","display_name":"Sabanc\u0131 \u00dcniversitesi","ror":"https://ror.org/049asqa32","country_code":"TR","type":"education","lineage":["https://openalex.org/I134235054"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Ogun Adebali","raw_affiliation_strings":["Faculty of Engineering and Natural Sciences, Sabanci University , Istanbul 34956, Turkey"],"affiliations":[{"raw_affiliation_string":"Faculty of Engineering and Natural Sciences, Sabanci University , Istanbul 34956, Turkey","institution_ids":["https://openalex.org/I134235054"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5051657734","display_name":"\u00d6znur Ta\u015ftan","orcid":"https://orcid.org/0000-0001-7058-5372"},"institutions":[{"id":"https://openalex.org/I134235054","display_name":"Sabanc\u0131 \u00dcniversitesi","ror":"https://ror.org/049asqa32","country_code":"TR","type":"education","lineage":["https://openalex.org/I134235054"]}],"countries":["TR"],"is_corresponding":true,"raw_author_name":"Oznur Tastan","raw_affiliation_strings":["Faculty of Engineering and Natural Sciences, Sabanci University , Istanbul 34956, Turkey"],"affiliations":[{"raw_affiliation_string":"Faculty of Engineering and Natural Sciences, Sabanci University , Istanbul 34956, Turkey","institution_ids":["https://openalex.org/I134235054"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5051657734"],"corresponding_institution_ids":["https://openalex.org/I134235054"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":1.0442,"has_fulltext":false,"cited_by_count":12,"citation_normalized_percentile":{"value":0.75581788,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"39","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10515","display_name":"Cancer-related molecular mechanisms research","score":0.9998999834060669,"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":0.9998999834060669,"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/T10521","display_name":"RNA and protein synthesis mechanisms","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/T11482","display_name":"RNA modifications and cancer","score":0.9991999864578247,"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/computer-science","display_name":"Computer science","score":0.7272197604179382},{"id":"https://openalex.org/keywords/orfs","display_name":"ORFS","score":0.6208335757255554},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.6125754117965698},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.5536162853240967},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4745103716850281},{"id":"https://openalex.org/keywords/ribosome-profiling","display_name":"Ribosome profiling","score":0.4467943012714386},{"id":"https://openalex.org/keywords/training-set","display_name":"Training set","score":0.41418805718421936},{"id":"https://openalex.org/keywords/open-reading-frame","display_name":"Open reading frame","score":0.36962124705314636},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3612961173057556},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.35913366079330444},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23487898707389832},{"id":"https://openalex.org/keywords/ribosome","display_name":"Ribosome","score":0.2343021035194397},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.16739097237586975},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.12690475583076477},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.1130133867263794}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7272197604179382},{"id":"https://openalex.org/C2780530800","wikidata":"https://www.wikidata.org/wiki/Q7072921","display_name":"ORFS","level":5,"score":0.6208335757255554},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.6125754117965698},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.5536162853240967},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4745103716850281},{"id":"https://openalex.org/C182325514","wikidata":"https://www.wikidata.org/wiki/Q7322425","display_name":"Ribosome profiling","level":5,"score":0.4467943012714386},{"id":"https://openalex.org/C51632099","wikidata":"https://www.wikidata.org/wiki/Q3985153","display_name":"Training set","level":2,"score":0.41418805718421936},{"id":"https://openalex.org/C47289529","wikidata":"https://www.wikidata.org/wiki/Q908550","display_name":"Open reading frame","level":4,"score":0.36962124705314636},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3612961173057556},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.35913366079330444},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23487898707389832},{"id":"https://openalex.org/C88478588","wikidata":"https://www.wikidata.org/wiki/Q42244","display_name":"Ribosome","level":4,"score":0.2343021035194397},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.16739097237586975},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12690475583076477},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.1130133867263794},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"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/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000096903","descriptor_name":"Micropeptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000096903","descriptor_name":"Micropeptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000096903","descriptor_name":"Micropeptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000096903","descriptor_name":"Micropeptides","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016366","descriptor_name":"Open Reading Frames","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D062085","descriptor_name":"RNA, Long Noncoding","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btac821","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac821","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/1/btac821/48521782/btac821.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:36571493","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/36571493","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:research.sabanciuniv.edu:45363","is_oa":false,"landing_page_url":"https://research.sabanciuniv.edu/id/eprint/45363/","pdf_url":null,"source":{"id":"https://openalex.org/S4306402254","display_name":"Sabanci University","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I134235054","host_organization_name":"Sabanc\u0131 \u00dcniversitesi","host_organization_lineage":["https://openalex.org/I134235054"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"},{"id":"pmh:oai:pubmedcentral.nih.gov:9825752","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9825752","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btac821","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btac821","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/39/1/btac821/48521782/btac821.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Reduced inequalities","id":"https://metadata.un.org/sdg/10","score":0.550000011920929}],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4312195221.pdf","grobid_xml":"https://content.openalex.org/works/W4312195221.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W1920458132","https://openalex.org/W1970741980","https://openalex.org/W2033492309","https://openalex.org/W2048194168","https://openalex.org/W2055043387","https://openalex.org/W2058852389","https://openalex.org/W2064675550","https://openalex.org/W2071849521","https://openalex.org/W2075320162","https://openalex.org/W2079517684","https://openalex.org/W2081090039","https://openalex.org/W2085220756","https://openalex.org/W2100424218","https://openalex.org/W2105349784","https://openalex.org/W2116790427","https://openalex.org/W2129883957","https://openalex.org/W2138122982","https://openalex.org/W2147800946","https://openalex.org/W2153268494","https://openalex.org/W2187089797","https://openalex.org/W2205343347","https://openalex.org/W2237493771","https://openalex.org/W2556522401","https://openalex.org/W2567665210","https://openalex.org/W2585475127","https://openalex.org/W2615786037","https://openalex.org/W2734798616","https://openalex.org/W2770089238","https://openalex.org/W2805813857","https://openalex.org/W2810973266","https://openalex.org/W2883632755","https://openalex.org/W2886166427","https://openalex.org/W2914698725","https://openalex.org/W2947017644","https://openalex.org/W2951413354","https://openalex.org/W2963356943","https://openalex.org/W2987349979","https://openalex.org/W2991798444","https://openalex.org/W2998998400","https://openalex.org/W2999743161","https://openalex.org/W3004788397","https://openalex.org/W3090569323","https://openalex.org/W3095583226","https://openalex.org/W3140024670","https://openalex.org/W3177828909","https://openalex.org/W4206275111","https://openalex.org/W6730169791"],"related_works":["https://openalex.org/W2017477982","https://openalex.org/W1978801575","https://openalex.org/W2029252138","https://openalex.org/W4306784270","https://openalex.org/W2101899141","https://openalex.org/W3031046715","https://openalex.org/W2017335389","https://openalex.org/W2358544099","https://openalex.org/W1976390578","https://openalex.org/W2072439611"],"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":3},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":3}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
