{"id":"https://openalex.org/W4400071979","doi":"https://doi.org/10.1109/access.2024.3419766","title":"Prediction of Protein-Coding Small ORFs Based on Supervised Contrastive Learning","display_name":"Prediction of Protein-Coding Small ORFs Based on Supervised Contrastive Learning","publication_year":2024,"publication_date":"2024-01-01","ids":{"openalex":"https://openalex.org/W4400071979","doi":"https://doi.org/10.1109/access.2024.3419766"},"language":"en","primary_location":{"id":"doi:10.1109/access.2024.3419766","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2024.3419766","pdf_url":null,"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://doi.org/10.1109/access.2024.3419766","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5077205322","display_name":"Dongting Xie","orcid":"https://orcid.org/0009-0003-3171-1526"},"institutions":[{"id":"https://openalex.org/I119203015","display_name":"Shandong University of Technology","ror":"https://ror.org/02mr3ar13","country_code":"CN","type":"education","lineage":["https://openalex.org/I119203015"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Dongmei Xie","raw_affiliation_strings":["School of Computer Science and Technology, Shandong University of Technology, Zibo, China"],"raw_orcid":"https://orcid.org/0009-0003-3171-1526","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong University of Technology, Zibo, China","institution_ids":["https://openalex.org/I119203015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102695995","display_name":"Xinye Bian","orcid":null},"institutions":[{"id":"https://openalex.org/I119203015","display_name":"Shandong University of Technology","ror":"https://ror.org/02mr3ar13","country_code":"CN","type":"education","lineage":["https://openalex.org/I119203015"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xinye Bian","raw_affiliation_strings":["School of Computer Science and Technology, Shandong University of Technology, Zibo, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong University of Technology, Zibo, China","institution_ids":["https://openalex.org/I119203015"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019281354","display_name":"Ziling Wang","orcid":"https://orcid.org/0000-0003-2372-5859"},"institutions":[{"id":"https://openalex.org/I119203015","display_name":"Shandong University of Technology","ror":"https://ror.org/02mr3ar13","country_code":"CN","type":"education","lineage":["https://openalex.org/I119203015"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ziling Wang","raw_affiliation_strings":["School of Computer Science and Technology, Shandong University of Technology, Zibo, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong University of Technology, Zibo, China","institution_ids":["https://openalex.org/I119203015"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5080064803","display_name":"Zhijian Qu","orcid":"https://orcid.org/0000-0003-3730-9522"},"institutions":[{"id":"https://openalex.org/I119203015","display_name":"Shandong University of Technology","ror":"https://ror.org/02mr3ar13","country_code":"CN","type":"education","lineage":["https://openalex.org/I119203015"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhijian Qu","raw_affiliation_strings":["School of Computer Science and Technology, Shandong University of Technology, Zibo, China"],"raw_orcid":"https://orcid.org/0000-0003-3730-9522","affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Shandong University of Technology, Zibo, China","institution_ids":["https://openalex.org/I119203015"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1850,"currency":"USD","value_usd":1850},"apc_paid":{"value":1850,"currency":"USD","value_usd":1850},"fwci":0.2041,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.54422444,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"12","issue":null,"first_page":"129212","last_page":"129223"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9995999932289124,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9995999932289124,"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/T10015","display_name":"Genomics and Phylogenetic Studies","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"}},{"id":"https://openalex.org/T12946","display_name":"Fractal and DNA sequence analysis","score":0.9988999962806702,"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":0.7239264845848083},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.559734046459198},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.527777910232544},{"id":"https://openalex.org/keywords/generality","display_name":"Generality","score":0.44464248418807983},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3890320956707001},{"id":"https://openalex.org/keywords/natural-language-processing","display_name":"Natural language processing","score":0.3608939051628113},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.07331547141075134},{"id":"https://openalex.org/keywords/psychology","display_name":"Psychology","score":0.06638938188552856}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7239264845848083},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.559734046459198},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.527777910232544},{"id":"https://openalex.org/C2780767217","wikidata":"https://www.wikidata.org/wiki/Q5532421","display_name":"Generality","level":2,"score":0.44464248418807983},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3890320956707001},{"id":"https://openalex.org/C204321447","wikidata":"https://www.wikidata.org/wiki/Q30642","display_name":"Natural language processing","level":1,"score":0.3608939051628113},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.07331547141075134},{"id":"https://openalex.org/C15744967","wikidata":"https://www.wikidata.org/wiki/Q9418","display_name":"Psychology","level":0,"score":0.06638938188552856},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C542102704","wikidata":"https://www.wikidata.org/wiki/Q183257","display_name":"Psychotherapist","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/access.2024.3419766","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2024.3419766","pdf_url":null,"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:5b5f569c75d9407ab2b9496239749914","is_oa":true,"landing_page_url":"https://doaj.org/article/5b5f569c75d9407ab2b9496239749914","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 12, Pp 129212-129223 (2024)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1109/access.2024.3419766","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2024.3419766","pdf_url":null,"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":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":48,"referenced_works":["https://openalex.org/W1019830208","https://openalex.org/W1882986874","https://openalex.org/W1970569349","https://openalex.org/W1998422171","https://openalex.org/W2011480164","https://openalex.org/W2048194168","https://openalex.org/W2052772529","https://openalex.org/W2061548680","https://openalex.org/W2078266900","https://openalex.org/W2162417400","https://openalex.org/W2311607323","https://openalex.org/W2336509392","https://openalex.org/W2734798616","https://openalex.org/W2772741766","https://openalex.org/W2784870452","https://openalex.org/W2809541759","https://openalex.org/W2905456928","https://openalex.org/W2914698725","https://openalex.org/W2971297443","https://openalex.org/W2987349979","https://openalex.org/W2999743161","https://openalex.org/W3013495013","https://openalex.org/W3014856348","https://openalex.org/W3022137185","https://openalex.org/W3169066049","https://openalex.org/W3173777717","https://openalex.org/W3174855653","https://openalex.org/W3196416984","https://openalex.org/W3209701493","https://openalex.org/W4221158047","https://openalex.org/W4226301219","https://openalex.org/W4281559042","https://openalex.org/W4281777906","https://openalex.org/W4287614078","https://openalex.org/W4287812705","https://openalex.org/W4290672942","https://openalex.org/W4295242737","https://openalex.org/W4295717668","https://openalex.org/W4312113926","https://openalex.org/W4313557121","https://openalex.org/W4319866019","https://openalex.org/W4324129712","https://openalex.org/W4366814608","https://openalex.org/W4378782822","https://openalex.org/W4380080316","https://openalex.org/W6774314701","https://openalex.org/W6776700526","https://openalex.org/W6784874100"],"related_works":["https://openalex.org/W2961085424","https://openalex.org/W4306674287","https://openalex.org/W4387369504","https://openalex.org/W3046775127","https://openalex.org/W4394896187","https://openalex.org/W3170094116","https://openalex.org/W4386462264","https://openalex.org/W3107602296","https://openalex.org/W4364306694","https://openalex.org/W4312192474"],"abstract_inverted_index":{"Prediction":[0],"of":[1,30,98,121,173,179,188],"protein-coding":[2,36,143,180],"small":[3],"open":[4],"reading":[5],"frames":[6],"(sORFs)":[7],"stands":[8],"as":[9],"a":[10,28],"fundamental":[11],"task":[12,178],"in":[13,22,65,132,142,152,156,176],"bioinformatics,":[14],"and":[15,51,68,93,100,104,135,183],"coding":[16,59],"sORFs":[17,37,50,55,60,107,144,181],"play":[18],"an":[19,77],"indispensable":[20],"role":[21],"biological":[23],"life":[24],"activities.":[25],"Until":[26],"now,":[27],"variety":[29],"tools":[31],"have":[32],"been":[33],"developed":[34],"for":[35],"prediction.":[38,145],"However,":[39],"the":[40,44,90,102,115,149,171,177,184,189],"existing":[41],"approaches":[42],"neglect":[43],"concordance":[45],"(discordance)":[46],"among":[47],"similar":[48],"(dissimilar)":[49],"need":[52],"to":[53,57,138],"extract":[54],"features":[56,92,97],"distinguish":[58],"from":[61,167],"non-coding":[62],"sORFs,":[63,99],"resulting":[64],"limited":[66],"generality":[67],"high":[69],"complexity.":[70],"To":[71],"address":[72],"this":[73],"limitation,":[74],"we":[75],"design":[76],"end-to-end":[78],"framework":[79,86,117],"CLsORFs":[80,116,129,146,160],"based":[81],"on":[82,118,165],"contrastive":[83,110,174],"learning.":[84,111],"The":[85,124],"can":[87],"autonomously":[88],"exploit":[89],"local":[91],"global":[94],"logical":[95],"correlation":[96],"capture":[101],"similarities":[103],"differences":[105],"between":[106],"through":[108],"supervised":[109],"We":[112],"comprehensively":[113],"evaluate":[114],"multiple":[119],"datasets":[120,166],"different":[122],"species.":[123],"experimental":[125],"results":[126],"show":[127],"that":[128],"performs":[130],"well":[131],"multi-species":[133],"prediction":[134,182],"is":[136],"superior":[137],"other":[139,168],"state-of-the-art":[140],"methods":[141],"has":[147,161],"improved":[148],"MCC":[150],"index":[151],"cross-species":[153],"prediction,":[154],"especially":[155],"eukaryotic":[157],"datasets.":[158],"Moreover,":[159],"demonstrated":[162],"excellent":[163],"performance":[164],"species,":[169],"validating":[170],"effectiveness":[172],"learning":[175],"good":[185],"generalization":[186],"ability":[187],"model.":[190]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
