{"id":"https://openalex.org/W7128038687","doi":"https://doi.org/10.1093/bioinformatics/btag060","title":"Mamba6mA: a Mamba-based DNA N6-methyladenine site prediction model","display_name":"Mamba6mA: a Mamba-based DNA N6-methyladenine site prediction model","publication_year":2026,"publication_date":"2026-01-30","ids":{"openalex":"https://openalex.org/W7128038687","doi":"https://doi.org/10.1093/bioinformatics/btag060","pmid":"https://pubmed.ncbi.nlm.nih.gov/41645436"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btag060","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag060","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":"gold","oa_url":"https://doi.org/10.1093/bioinformatics/btag060","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5125127938","display_name":"Qi Zhao","orcid":null},"institutions":[{"id":"https://openalex.org/I118803816","display_name":"Liaoning University","ror":"https://ror.org/03xpwj629","country_code":"CN","type":"education","lineage":["https://openalex.org/I118803816"]},{"id":"https://openalex.org/I9224756","display_name":"Northeastern University","ror":"https://ror.org/03awzbc87","country_code":"CN","type":"education","lineage":["https://openalex.org/I9224756"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qi Zhao","raw_affiliation_strings":["Liaoning University Faculty of Information, , Shenyang, Liaoning, 110036,","Northeastern University College of Medicine and Biological Information Engineering, , Shenyang, Liaoning, 110000,"],"raw_orcid":"https://orcid.org/0000-0002-7981-9478","affiliations":[{"raw_affiliation_string":"Liaoning University Faculty of Information, , Shenyang, Liaoning, 110036,","institution_ids":["https://openalex.org/I118803816"]},{"raw_affiliation_string":"Northeastern University College of Medicine and Biological Information Engineering, , Shenyang, Liaoning, 110000,","institution_ids":["https://openalex.org/I9224756"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5125156510","display_name":"Zhen Zhang","orcid":null},"institutions":[{"id":"https://openalex.org/I9224756","display_name":"Northeastern University","ror":"https://ror.org/03awzbc87","country_code":"CN","type":"education","lineage":["https://openalex.org/I9224756"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Zhen Zhang","raw_affiliation_strings":["Northeastern University College of Medicine and Biological Information Engineering, , Shenyang, Liaoning, 110000,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northeastern University College of Medicine and Biological Information Engineering, , Shenyang, Liaoning, 110000,","institution_ids":["https://openalex.org/I9224756"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032862669","display_name":"Xu Hu","orcid":"https://orcid.org/0000-0003-4306-4656"},"institutions":[{"id":"https://openalex.org/I118803816","display_name":"Liaoning University","ror":"https://ror.org/03xpwj629","country_code":"CN","type":"education","lineage":["https://openalex.org/I118803816"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tingwei Chen","raw_affiliation_strings":["Liaoning University Faculty of Information, , Shenyang, Liaoning, 110036,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Liaoning University Faculty of Information, , Shenyang, Liaoning, 110036,","institution_ids":["https://openalex.org/I118803816"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5115605004","display_name":"Qian Mao","orcid":"https://orcid.org/0000-0002-9539-2064"},"institutions":[{"id":"https://openalex.org/I118803816","display_name":"Liaoning University","ror":"https://ror.org/03xpwj629","country_code":"CN","type":"education","lineage":["https://openalex.org/I118803816"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Qian Mao","raw_affiliation_strings":["Liaoning University College of Light Industry, , Shenyang, Liaoning, 110036,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Liaoning University College of Light Industry, , Shenyang, Liaoning, 110036,","institution_ids":["https://openalex.org/I118803816"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5086461321","display_name":"H. Z. Shi","orcid":"https://orcid.org/0000-0002-8014-2783"},"institutions":[{"id":"https://openalex.org/I9224756","display_name":"Northeastern University","ror":"https://ror.org/03awzbc87","country_code":"CN","type":"education","lineage":["https://openalex.org/I9224756"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Haoxuan Shi","raw_affiliation_strings":["Northeastern University College of Medicine and Biological Information Engineering, , Shenyang, Liaoning, 110000,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northeastern University College of Medicine and Biological Information Engineering, , Shenyang, Liaoning, 110000,","institution_ids":["https://openalex.org/I9224756"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5116319498","display_name":"Jingjing Chen","orcid":"https://orcid.org/0009-0004-4307-623X"},"institutions":[{"id":"https://openalex.org/I9224756","display_name":"Northeastern University","ror":"https://ror.org/03awzbc87","country_code":"CN","type":"education","lineage":["https://openalex.org/I9224756"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Jingjing Chen","raw_affiliation_strings":["Northeastern University College of Medicine and Biological Information Engineering, , Shenyang, Liaoning, 110000,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Northeastern University College of Medicine and Biological Information Engineering, , Shenyang, Liaoning, 110000,","institution_ids":["https://openalex.org/I9224756"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5125197468","display_name":"Zheng Zhao","orcid":null},"institutions":[{"id":"https://openalex.org/I43313876","display_name":"Dalian Maritime University","ror":"https://ror.org/002b7nr53","country_code":"CN","type":"education","lineage":["https://openalex.org/I43313876"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Zheng Zhao","raw_affiliation_strings":["Dalian Maritime University College of Artificial Intelligence, , Dalian, Liaoning, 116026,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Dalian Maritime University College of Artificial Intelligence, , Dalian, Liaoning, 116026,","institution_ids":["https://openalex.org/I43313876"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5055305202","display_name":"Xiaoya Fan","orcid":"https://orcid.org/0000-0002-5002-6968"},"institutions":[{"id":"https://openalex.org/I156292868","display_name":"Dalian University of Foreign Languages","ror":"https://ror.org/008a8z393","country_code":"CN","type":"education","lineage":["https://openalex.org/I156292868"]},{"id":"https://openalex.org/I27357992","display_name":"Dalian University of Technology","ror":"https://ror.org/023hj5876","country_code":"CN","type":"education","lineage":["https://openalex.org/I27357992"]},{"id":"https://openalex.org/I4210092944","display_name":"Dalian University","ror":"https://ror.org/00g2ypp58","country_code":"CN","type":"education","lineage":["https://openalex.org/I4210092944"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Xiaoya Fan","raw_affiliation_strings":["Dalian University of Technology School of Software, , Dalian, Liaoning, 116024,"],"raw_orcid":"https://orcid.org/0000-0002-5002-6968","affiliations":[{"raw_affiliation_string":"Dalian University of Technology School of Software, , Dalian, Liaoning, 116024,","institution_ids":["https://openalex.org/I27357992","https://openalex.org/I156292868","https://openalex.org/I4210092944"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5055305202","https://openalex.org/A5125197468"],"corresponding_institution_ids":["https://openalex.org/I156292868","https://openalex.org/I27357992","https://openalex.org/I4210092944","https://openalex.org/I43313876"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.12062332,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"42","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.833299994468689,"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":0.833299994468689,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.04659999907016754,"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/T11642","display_name":"Genomics and Rare Diseases","score":0.020400000736117363,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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":0.5185999870300293},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.40939998626708984},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.30709999799728394},{"id":"https://openalex.org/keywords/computer-software","display_name":"Computer software","score":0.25429999828338623}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.579200029373169},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5476999878883362},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.5185999870300293},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.40939998626708984},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.38040000200271606},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.32109999656677246},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.30709999799728394},{"id":"https://openalex.org/C2984499602","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Computer software","level":2,"score":0.25429999828338623},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.24169999361038208},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23899999260902405}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000031","qualifier_name":"analogs & derivatives","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D000225","descriptor_name":"Adenine","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"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":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"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":"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":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"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":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btag060","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag060","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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:41645436","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41645436","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:pubmedcentral.nih.gov:12960908","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12960908/","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12960908/pdf/btag060.pdf","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":"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/btag060","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btag060","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":true,"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":[],"awards":[{"id":"https://openalex.org/G55857174","display_name":null,"funder_award_id":"62002056","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":26,"referenced_works":["https://openalex.org/W78683901","https://openalex.org/W1974527579","https://openalex.org/W1984783889","https://openalex.org/W2085561926","https://openalex.org/W2102589447","https://openalex.org/W2129329277","https://openalex.org/W2910591656","https://openalex.org/W2944851425","https://openalex.org/W2948863695","https://openalex.org/W2949348780","https://openalex.org/W2949685204","https://openalex.org/W2979999916","https://openalex.org/W2980479442","https://openalex.org/W2997062412","https://openalex.org/W3011537067","https://openalex.org/W3034527519","https://openalex.org/W3130800274","https://openalex.org/W3200314447","https://openalex.org/W3204213738","https://openalex.org/W4210371902","https://openalex.org/W4313530678","https://openalex.org/W4313544615","https://openalex.org/W4388331430","https://openalex.org/W4390452972","https://openalex.org/W4392561833","https://openalex.org/W4412683136"],"related_works":[],"abstract_inverted_index":{"MOTIVATION:":[0],"N6-methyladenine":[1],"(6":[2],"mA)":[3],"is":[4,244],"an":[5],"important":[6],"epigenetic":[7,233],"modification":[8,234],"of":[9,155,177,202,222],"DNA":[10,21,29,54],"that":[11,168,188,212],"regulates":[12],"biological":[13],"processes":[14],"such":[15,48],"as":[16,49],"gene":[17],"expression,":[18],"transcription,":[19],"replication,":[20],"repair,":[22],"and":[23,42,52,74,148,193,204,220],"cell":[24],"cycle":[25],"without":[26],"altering":[27],"the":[28,103,121,161,171,189,194,213],"sequence.":[30],"It":[31],"also":[32],"plays":[33],"a":[34,110,143,227],"key":[35],"role":[36],"in":[37,87],"many":[38],"diseases":[39],"including":[40,65],"cancer":[41],"autoimmune":[43],"diseases.":[44],"Although":[45],"experimental":[46],"approaches":[47,82],"SMRT":[50],"sequencing":[51,67],"methylated":[53],"immunoprecipitation":[55],"can":[56],"identify":[57],"6":[58,89,114,223],"mA":[59,90,115,224],"sites,":[60],"they":[61],"suffer":[62],"from":[63],"drawbacks":[64],"suboptimal":[66],"quality,":[68],"low":[69],"signal-to-noise":[70],"ratios,":[71],"high":[72],"costs,":[73],"time-consuming":[75],"procedures.":[76],"In":[77,120],"recent":[78],"years,":[79],"deep":[80],"learning":[81],"have":[83],"demonstrated":[84],"significant":[85],"advantages":[86],"predicting":[88],"sites;":[91],"however,":[92],"their":[93],"generalization":[94],"ability":[95],"still":[96],"requires":[97],"further":[98,210],"improvement.":[99],"RESULTS:":[100],"Inspired":[101],"by":[102,152],"state":[104],"space":[105],"model":[106,112,214],"Mamba,":[107],"we":[108,124,141],"propose":[109],"novel":[111],"for":[113,163,231,242],"site":[116],"prediction,":[117],"named":[118],"Mamba6mA.":[119],"Mamba6mA":[122,169,243],"model,":[123],"design":[125],"position-specific":[126,190],"linear":[127,191],"layers":[128,133,192],"to":[129,134],"replace":[130],"traditional":[131],"convolutional":[132],"facilitate":[135],"capture":[136],"specific":[137],"positional":[138],"information.":[139],"Meanwhile,":[140],"construct":[142],"multi-scale":[144,195],"feature":[145],"extraction":[146],"module":[147,197],"integrate":[149],"features":[150],"captured":[151],"sliding":[153],"windows":[154],"different":[156],"scales,":[157],"feeding":[158],"them":[159],"into":[160],"classifier":[162],"prediction.":[164],"Experimental":[165],"results":[166],"show":[167],"achieves":[170],"best":[172],"MCC":[173,199],"on":[174],"9":[175],"out":[176],"11":[178],"species":[179],"datasets,":[180],"surpassing":[181],"existing":[182],"state-of-the-art":[183],"models.":[184],"Ablation":[185],"studies":[186],"confirm":[187],"fusion":[196],"contribute":[198],"performance":[200],"gains":[201],"2.36%":[203],"2.31%,":[205],"respectively.":[206],"Feature":[207],"visualization":[208],"analysis":[209],"reveals":[211],"effectively":[215],"captures":[216],"sequence":[217],"patterns":[218],"upstream":[219],"downstream":[221],"sites":[225],"providing":[226],"new":[228],"technical":[229],"approach":[230],"studying":[232],"mechanisms.":[235],"AVAILABILITY":[236],"AND":[237],"IMPLEMENTATION:":[238],"The":[239],"source":[240],"code":[241],"available":[245],"at:":[246],"https://github.com/XploreAI-Lab/Mamba6mA.":[247]},"counts_by_year":[],"updated_date":"2026-07-13T07:31:44.756512","created_date":"2026-02-07T00:00:00"}