{"id":"https://openalex.org/W4410949737","doi":"https://doi.org/10.1109/access.2025.3575700","title":"Attention Integrated Residue CNN for Classification of DNA-Binding and RNA-Binding Proteins","display_name":"Attention Integrated Residue CNN for Classification of DNA-Binding and RNA-Binding Proteins","publication_year":2025,"publication_date":"2025-01-01","ids":{"openalex":"https://openalex.org/W4410949737","doi":"https://doi.org/10.1109/access.2025.3575700"},"language":"en","primary_location":{"id":"doi:10.1109/access.2025.3575700","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3575700","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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.2025.3575700","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5011273409","display_name":"T Prabhu","orcid":null},"institutions":[{"id":"https://openalex.org/I164861460","display_name":"Manipal Academy of Higher Education","ror":"https://ror.org/02xzytt36","country_code":"IN","type":"education","lineage":["https://openalex.org/I164861460"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"T. Prajwal Prabhu","raw_affiliation_strings":["Department of Information and Communication Technology, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal, India"],"raw_orcid":"https://orcid.org/0009-0001-9204-0565","affiliations":[{"raw_affiliation_string":"Department of Information and Communication Technology, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal, India","institution_ids":["https://openalex.org/I164861460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5117798874","display_name":"Rasagnya Bethi","orcid":null},"institutions":[{"id":"https://openalex.org/I164861460","display_name":"Manipal Academy of Higher Education","ror":"https://ror.org/02xzytt36","country_code":"IN","type":"education","lineage":["https://openalex.org/I164861460"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Rasagnya Bethi","raw_affiliation_strings":["Department of Information and Communication Technology, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal, India"],"raw_orcid":"https://orcid.org/0009-0002-5698-8305","affiliations":[{"raw_affiliation_string":"Department of Information and Communication Technology, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal, India","institution_ids":["https://openalex.org/I164861460"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083798172","display_name":"Satyajit Mahapatra","orcid":"https://orcid.org/0000-0002-5516-6978"},"institutions":[{"id":"https://openalex.org/I164861460","display_name":"Manipal Academy of Higher Education","ror":"https://ror.org/02xzytt36","country_code":"IN","type":"education","lineage":["https://openalex.org/I164861460"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Satyajit Mahapatra","raw_affiliation_strings":["Department of Information and Communication Technology, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal, India"],"raw_orcid":"https://orcid.org/0000-0002-5516-6978","affiliations":[{"raw_affiliation_string":"Department of Information and Communication Technology, Manipal Institute of Technology, Manipal Academy of Higher Education, Manipal, India","institution_ids":["https://openalex.org/I164861460"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5048255947","display_name":"Tusar Kanti Dash","orcid":"https://orcid.org/0000-0002-7964-7485"},"institutions":[{"id":"https://openalex.org/I904090387","display_name":"Global University","ror":"https://ror.org/04frhb927","country_code":"LB","type":"education","lineage":["https://openalex.org/I904090387"]}],"countries":["LB"],"is_corresponding":false,"raw_author_name":"Tusar Kanti Dash","raw_affiliation_strings":["Electronics and Communication Engineering Department, C. V. Raman Global University, Bhubaneswar, Odisha, India"],"raw_orcid":"https://orcid.org/0000-0002-7964-7485","affiliations":[{"raw_affiliation_string":"Electronics and Communication Engineering Department, C. V. Raman Global University, Bhubaneswar, Odisha, India","institution_ids":["https://openalex.org/I904090387"]}]}],"institutions":[],"countries_distinct_count":2,"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":0.576,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.6654022,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":98},"biblio":{"volume":"13","issue":null,"first_page":"96226","last_page":"96235"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","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"}},"topics":[{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","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"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9909999966621399,"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":0.9822999835014343,"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/dna","display_name":"DNA","score":0.5369038581848145},{"id":"https://openalex.org/keywords/rna-binding-protein","display_name":"RNA-binding protein","score":0.46744000911712646},{"id":"https://openalex.org/keywords/residue","display_name":"Residue (chemistry)","score":0.4546331763267517},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4206876754760742},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.4078195095062256},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.38877689838409424},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.3773221969604492},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.35715556144714355},{"id":"https://openalex.org/keywords/biophysics","display_name":"Biophysics","score":0.3513221740722656},{"id":"https://openalex.org/keywords/pattern-recognition","display_name":"Pattern recognition (psychology)","score":0.34069764614105225},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.2245844602584839},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.17439788579940796},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10710367560386658}],"concepts":[{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5369038581848145},{"id":"https://openalex.org/C41282012","wikidata":"https://www.wikidata.org/wiki/Q3928341","display_name":"RNA-binding protein","level":4,"score":0.46744000911712646},{"id":"https://openalex.org/C2781338088","wikidata":"https://www.wikidata.org/wiki/Q903495","display_name":"Residue (chemistry)","level":2,"score":0.4546331763267517},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4206876754760742},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.4078195095062256},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.38877689838409424},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.3773221969604492},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.35715556144714355},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.3513221740722656},{"id":"https://openalex.org/C153180895","wikidata":"https://www.wikidata.org/wiki/Q7148389","display_name":"Pattern recognition (psychology)","level":2,"score":0.34069764614105225},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.2245844602584839},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.17439788579940796},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10710367560386658}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/access.2025.3575700","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3575700","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},{"id":"pmh:oai:doaj.org/article:b4299786d9c4495b8de01275822f2419","is_oa":true,"landing_page_url":"https://doaj.org/article/b4299786d9c4495b8de01275822f2419","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 13, Pp 96226-96235 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1109/access.2025.3575700","is_oa":true,"landing_page_url":"https://doi.org/10.1109/access.2025.3575700","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Access","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Zero hunger","id":"https://metadata.un.org/sdg/2","score":0.5899999737739563}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":31,"referenced_works":["https://openalex.org/W1967391020","https://openalex.org/W1969156759","https://openalex.org/W2002749442","https://openalex.org/W2010688088","https://openalex.org/W2018327163","https://openalex.org/W2090561245","https://openalex.org/W2096387274","https://openalex.org/W2561871078","https://openalex.org/W2752782242","https://openalex.org/W2766234610","https://openalex.org/W2777094228","https://openalex.org/W2883467144","https://openalex.org/W2889326414","https://openalex.org/W2963495494","https://openalex.org/W2990594531","https://openalex.org/W3024487594","https://openalex.org/W3031696400","https://openalex.org/W3045773394","https://openalex.org/W3049439427","https://openalex.org/W3086768476","https://openalex.org/W3105609465","https://openalex.org/W3114047206","https://openalex.org/W3200616132","https://openalex.org/W4200031065","https://openalex.org/W4211236594","https://openalex.org/W4214656865","https://openalex.org/W4224095040","https://openalex.org/W4225835054","https://openalex.org/W4289711170","https://openalex.org/W4293374003","https://openalex.org/W4397000037"],"related_works":["https://openalex.org/W2032398765","https://openalex.org/W2147993839","https://openalex.org/W1840103016","https://openalex.org/W54859794","https://openalex.org/W2391870038","https://openalex.org/W2064941026","https://openalex.org/W2053842772","https://openalex.org/W2359508303","https://openalex.org/W1983151649","https://openalex.org/W2034409080"],"abstract_inverted_index":{"The":[0],"classification":[1,44],"of":[2,97,103,108,116,122,136,141,148,153],"DNA-binding":[3],"proteins":[4,8,70,78],"(DBPs)":[5],"and":[6,16,30,54,76,84,138,145,150,190],"RNA-binding":[7],"(RBPs)":[9],"is":[10,58,124],"essential":[11],"for":[12,105,143,155,188],"understanding":[13],"molecular":[14],"interactions":[15],"regulatory":[17],"functions.":[18],"However,":[19],"the":[20,77,88,91,106,127,130,165,169,174,179],"existing":[21],"computational":[22],"approaches":[23],"face":[24],"difficulties":[25],"in":[26,33,60,68],"differentiating":[27],"between":[28],"DBPs":[29,144],"RBPs":[31],"resulting":[32],"cross-prediction":[34],"errors.":[35],"To":[36],"mitigate":[37],"this":[38,61],"issue,":[39],"SERCNN":[40,92],"as":[41,184],"a":[42,100,119,139,151,185],"multilabel":[43],"model,":[45],"which":[46],"integrates":[47],"deep":[48],"neural":[49],"networks":[50],"with":[51,73,99,118],"residual":[52],"connections":[53],"squeeze-and-excitation":[55],"attention":[56],"mechanisms,":[57],"developed":[59],"paper.":[62],"This":[63],"approach":[64],"provides":[65],"improved":[66],"performance":[67,159],"predicting":[69],"that":[71,79,178],"bind":[72,80],"DNA,":[74],"RNA,":[75],"to":[81],"both":[82],"DNA":[83],"RNA":[85],"(DRBPs).":[86],"On":[87],"TEST474":[89],"dataset,":[90,129],"achieved":[93,133],"an":[94,113,134,146],"AUC":[95,114,135,147],"value":[96,102,115,121],"0.95":[98],"1-AURC":[101,120,140,152],"0.91":[104],"prediction":[107,112,158,170,192],"DBPs.":[109],"For":[110,126],"RBP":[111,191],"0.92":[117],"0.90,":[123],"obtained.":[125],"PDB255":[128],"proposed":[131,180],"model":[132,181],"0.80":[137,149],"0.85":[142],"0.81":[154],"RBPs.":[156],"Improved":[157],"has":[160],"also":[161],"been":[162],"obtained":[163,172],"on":[164,173],"DRBP206":[166],"dataset.":[167],"Therefore,":[168],"results":[171],"test":[175],"dataset":[176],"suggest":[177],"can":[182],"employed":[183],"useful":[186],"tool":[187],"DBP":[189],"tasks.":[193]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
