{"id":"https://openalex.org/W4404733022","doi":"https://doi.org/10.1093/bib/bbae607","title":"DiMA: sequence diversity dynamics analyser for viruses","display_name":"DiMA: sequence diversity dynamics analyser for viruses","publication_year":2024,"publication_date":"2024-11-22","ids":{"openalex":"https://openalex.org/W4404733022","doi":"https://doi.org/10.1093/bib/bbae607","pmid":"https://pubmed.ncbi.nlm.nih.gov/39592151"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbae607","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae607","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in 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/bib/bbae607","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5002562732","display_name":"Shan Tharanga","orcid":null},"institutions":[{"id":"https://openalex.org/I4210096221","display_name":"Perdana University","ror":"https://ror.org/00wfd0g93","country_code":"MY","type":"education","lineage":["https://openalex.org/I4210096221"]}],"countries":["MY"],"is_corresponding":true,"raw_author_name":"Shan Tharanga","raw_affiliation_strings":["Centre for Bioinformatics , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","Perdana University , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Bioinformatics , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","institution_ids":[]},{"raw_affiliation_string":"Perdana University , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","institution_ids":["https://openalex.org/I4210096221"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057531794","display_name":"Eyy\u00fcb S. \u00dcnl\u00fc","orcid":"https://orcid.org/0000-0003-2200-0928"},"institutions":[{"id":"https://openalex.org/I2802476451","display_name":"Wellcome Sanger Institute","ror":"https://ror.org/05cy4wa09","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I2802476451","https://openalex.org/I87048295"]},{"id":"https://openalex.org/I67581229","display_name":"Istanbul University","ror":"https://ror.org/03a5qrr21","country_code":"TR","type":"education","lineage":["https://openalex.org/I67581229"]}],"countries":["GB","TR"],"is_corresponding":false,"raw_author_name":"Eyy\u00fcb Selim \u00dcnl\u00fc","raw_affiliation_strings":["Genome Surveillance Unit, Wellcome Sanger Institute , Mill Ln, Hinxton, Saffron Walden CB10 1SA ,","Istanbul Faculty of Medicine, Istanbul University , Turgut \u00d6zal Millet St, Topkapi, Istanbul 34093 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Genome Surveillance Unit, Wellcome Sanger Institute , Mill Ln, Hinxton, Saffron Walden CB10 1SA ,","institution_ids":["https://openalex.org/I2802476451"]},{"raw_affiliation_string":"Istanbul Faculty of Medicine, Istanbul University , Turgut \u00d6zal Millet St, Topkapi, Istanbul 34093 ,","institution_ids":["https://openalex.org/I67581229"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027329007","display_name":"Yongli Hu","orcid":"https://orcid.org/0000-0003-0440-438X"},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]},{"id":"https://openalex.org/I4210096221","display_name":"Perdana University","ror":"https://ror.org/00wfd0g93","country_code":"MY","type":"education","lineage":["https://openalex.org/I4210096221"]}],"countries":["MY","SG"],"is_corresponding":false,"raw_author_name":"Yongli Hu","raw_affiliation_strings":["Centre for Bioinformatics , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","Department of Biochemistry , Yong Loo Lin School of Medicine, , 8 Medical Drive, Singapore 117597 ,","National University of Singapore , Yong Loo Lin School of Medicine, , 8 Medical Drive, Singapore 117597 ,","Perdana University , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Bioinformatics , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","institution_ids":[]},{"raw_affiliation_string":"Department of Biochemistry , Yong Loo Lin School of Medicine, , 8 Medical Drive, Singapore 117597 ,","institution_ids":[]},{"raw_affiliation_string":"National University of Singapore , Yong Loo Lin School of Medicine, , 8 Medical Drive, Singapore 117597 ,","institution_ids":["https://openalex.org/I165932596"]},{"raw_affiliation_string":"Perdana University , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","institution_ids":["https://openalex.org/I4210096221"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060767718","display_name":"Muhammad Farhan Sjaugi","orcid":"https://orcid.org/0000-0001-8497-1768"},"institutions":[{"id":"https://openalex.org/I4210096221","display_name":"Perdana University","ror":"https://ror.org/00wfd0g93","country_code":"MY","type":"education","lineage":["https://openalex.org/I4210096221"]}],"countries":["MY"],"is_corresponding":false,"raw_author_name":"Muhammad Farhan Sjaugi","raw_affiliation_strings":["Centre for Bioinformatics , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","Perdana University , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Bioinformatics , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","institution_ids":[]},{"raw_affiliation_string":"Perdana University , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","institution_ids":["https://openalex.org/I4210096221"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057839395","display_name":"Muhammet A. Celik","orcid":null},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Muhammet A \u00c7elik","raw_affiliation_strings":["Celik Saray\u0131 , Yeni Elektrik Santral St. No:29/2, Meram, Konya 42090 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Celik Saray\u0131 , Yeni Elektrik Santral St. No:29/2, Meram, Konya 42090 ,","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5080945831","display_name":"Hilal Hekimo\u011flu","orcid":"https://orcid.org/0000-0002-6234-3469"},"institutions":[{"id":"https://openalex.org/I3125175737","display_name":"Bezmi\u00e2lem Vak\u0131f \u00dcniversitesi","ror":"https://ror.org/04z60tq39","country_code":"TR","type":"education","lineage":["https://openalex.org/I3125175737"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Hilal Hekimo\u011flu","raw_affiliation_strings":["Beykoz Institute of Life Sciences and Biotechnology, Bezmialem Vakif University , Ali Ihsan Kalmaz St., No.10 Beykoz, Istanbul 34820 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beykoz Institute of Life Sciences and Biotechnology, Bezmialem Vakif University , Ali Ihsan Kalmaz St., No.10 Beykoz, Istanbul 34820 ,","institution_ids":["https://openalex.org/I3125175737"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5052502655","display_name":"Olivo Miotto","orcid":"https://orcid.org/0000-0001-8060-6771"},"institutions":[{"id":"https://openalex.org/I25399158","display_name":"Mahidol University","ror":"https://ror.org/01znkr924","country_code":"TH","type":"education","lineage":["https://openalex.org/I25399158"]},{"id":"https://openalex.org/I40120149","display_name":"University of Oxford","ror":"https://ror.org/052gg0110","country_code":"GB","type":"education","lineage":["https://openalex.org/I40120149"]},{"id":"https://openalex.org/I4210126604","display_name":"Mahidol Oxford Tropical Medicine Research Unit","ror":"https://ror.org/03fs9z545","country_code":"TH","type":"facility","lineage":["https://openalex.org/I25399158","https://openalex.org/I40120149","https://openalex.org/I4210126604","https://openalex.org/I87048295"]}],"countries":["GB","TH"],"is_corresponding":false,"raw_author_name":"Olivo Miotto","raw_affiliation_strings":["Mahidol University , Faculty of Tropical Medicine, , 420/6 Ratchawithi Rd., Ratchathewi District, Bangkok 10400 ,","Mahidol-Oxford Tropical Medicine Research Unit , Faculty of Tropical Medicine, , 420/6 Ratchawithi Rd., Ratchathewi District, Bangkok 10400 ,","Nuffield Department of Clinical Medicine, University of Oxford , Old Road, Old Road Campus, Oxford OX3 7LF ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Mahidol University , Faculty of Tropical Medicine, , 420/6 Ratchawithi Rd., Ratchathewi District, Bangkok 10400 ,","institution_ids":["https://openalex.org/I4210126604","https://openalex.org/I25399158"]},{"raw_affiliation_string":"Mahidol-Oxford Tropical Medicine Research Unit , Faculty of Tropical Medicine, , 420/6 Ratchawithi Rd., Ratchathewi District, Bangkok 10400 ,","institution_ids":["https://openalex.org/I4210126604"]},{"raw_affiliation_string":"Nuffield Department of Clinical Medicine, University of Oxford , Old Road, Old Road Campus, Oxford OX3 7LF ,","institution_ids":["https://openalex.org/I40120149"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062940040","display_name":"Muhammed Miran \u00d6ncel","orcid":null},"institutions":[{"id":"https://openalex.org/I3125175737","display_name":"Bezmi\u00e2lem Vak\u0131f \u00dcniversitesi","ror":"https://ror.org/04z60tq39","country_code":"TR","type":"education","lineage":["https://openalex.org/I3125175737"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"Muhammed Miran \u00d6ncel","raw_affiliation_strings":["Beykoz Institute of Life Sciences and Biotechnology, Bezmialem Vakif University , Ali Ihsan Kalmaz St., No.10 Beykoz, Istanbul 34820 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beykoz Institute of Life Sciences and Biotechnology, Bezmialem Vakif University , Ali Ihsan Kalmaz St., No.10 Beykoz, Istanbul 34820 ,","institution_ids":["https://openalex.org/I3125175737"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5067724472","display_name":"Asif M. Khan","orcid":"https://orcid.org/0000-0001-9202-279X"},"institutions":[{"id":"https://openalex.org/I3125175737","display_name":"Bezmi\u00e2lem Vak\u0131f \u00dcniversitesi","ror":"https://ror.org/04z60tq39","country_code":"TR","type":"education","lineage":["https://openalex.org/I3125175737"]},{"id":"https://openalex.org/I4210096221","display_name":"Perdana University","ror":"https://ror.org/00wfd0g93","country_code":"MY","type":"education","lineage":["https://openalex.org/I4210096221"]},{"id":"https://openalex.org/I4210105992","display_name":"Qatar Science and Technology Park","ror":"https://ror.org/01gshyb58","country_code":"QA","type":"archive","lineage":["https://openalex.org/I4210105992"]}],"countries":["MY","QA","TR"],"is_corresponding":false,"raw_author_name":"Asif M Khan","raw_affiliation_strings":["Beykoz Institute of Life Sciences and Biotechnology, Bezmialem Vakif University , Ali Ihsan Kalmaz St., No.10 Beykoz, Istanbul 34820 ,","Centre for Bioinformatics , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","College of Computing and Information Technology, University of Doha for Science and Technology , Jelaiah Street, Duhail North, Doha ,","Perdana University , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Beykoz Institute of Life Sciences and Biotechnology, Bezmialem Vakif University , Ali Ihsan Kalmaz St., No.10 Beykoz, Istanbul 34820 ,","institution_ids":["https://openalex.org/I3125175737"]},{"raw_affiliation_string":"Centre for Bioinformatics , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","institution_ids":[]},{"raw_affiliation_string":"College of Computing and Information Technology, University of Doha for Science and Technology , Jelaiah Street, Duhail North, Doha ,","institution_ids":["https://openalex.org/I4210105992"]},{"raw_affiliation_string":"Perdana University , School of Data Sciences, , MAEPS Building, Jalan MAEPS Perdana, Serdang, Kuala Lumpur 50490 ,","institution_ids":["https://openalex.org/I4210096221"]}]}],"institutions":[],"countries_distinct_count":6,"institutions_distinct_count":9,"corresponding_author_ids":["https://openalex.org/A5002562732"],"corresponding_institution_ids":["https://openalex.org/I4210096221"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":1.2662,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.80084345,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"26","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9997000098228455,"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.9991000294685364,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11764","display_name":"Evolution and Genetic Dynamics","score":0.9991000294685364,"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/refseq","display_name":"RefSeq","score":0.6739616394042969},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5667368769645691},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4823700487613678},{"id":"https://openalex.org/keywords/sequence-analysis","display_name":"Sequence analysis","score":0.4739539623260498},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.44776803255081177},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4310562312602997},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.4103164076805115},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3641824722290039},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.26809102296829224},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.2508533000946045}],"concepts":[{"id":"https://openalex.org/C151810110","wikidata":"https://www.wikidata.org/wiki/Q7307074","display_name":"RefSeq","level":4,"score":0.6739616394042969},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5667368769645691},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4823700487613678},{"id":"https://openalex.org/C61053724","wikidata":"https://www.wikidata.org/wiki/Q1154615","display_name":"Sequence analysis","level":3,"score":0.4739539623260498},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.44776803255081177},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4310562312602997},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.4103164076805115},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3641824722290039},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.26809102296829224},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.2508533000946045}],"mesh":[{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086382","descriptor_name":"COVID-19","qualifier_ui":"Q000821","qualifier_name":"virology","is_major_topic":false},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D000086402","descriptor_name":"SARS-CoV-2","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"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":"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":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014644","descriptor_name":"Genetic Variation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D014780","descriptor_name":"Viruses","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000145","qualifier_name":"classification","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D015497","descriptor_name":"HIV-1","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bib/bbae607","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae607","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:39592151","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/39592151","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:11596295","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/11596295","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC11596295/pdf/bbae607.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-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Brief Bioinform","raw_type":"Text"},{"id":"pmh:oai:figshare.com:article/29109005","is_oa":true,"landing_page_url":null,"pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal contribution"}],"best_oa_location":{"id":"doi:10.1093/bib/bbae607","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbae607","pdf_url":null,"source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.5}],"awards":[],"funders":[{"id":"https://openalex.org/F4320322626","display_name":"T\u00fcrkiye Bilimsel ve Teknolojik Ara\u015ft\u0131rma Kurumu","ror":"https://ror.org/04w9kkr77"},{"id":"https://openalex.org/F4320338304","display_name":"Los Alamos National Laboratory","ror":"https://ror.org/01e41cf67"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":83,"referenced_works":["https://openalex.org/W1775447850","https://openalex.org/W1963957860","https://openalex.org/W1966707677","https://openalex.org/W1983360668","https://openalex.org/W1993210385","https://openalex.org/W1995875735","https://openalex.org/W1996516710","https://openalex.org/W2000460129","https://openalex.org/W2007939821","https://openalex.org/W2021210077","https://openalex.org/W2023606914","https://openalex.org/W2030123555","https://openalex.org/W2033339460","https://openalex.org/W2041734564","https://openalex.org/W2053201375","https://openalex.org/W2056182928","https://openalex.org/W2060797027","https://openalex.org/W2062389166","https://openalex.org/W2065001361","https://openalex.org/W2065843293","https://openalex.org/W2066829062","https://openalex.org/W2071943298","https://openalex.org/W2073918065","https://openalex.org/W2074703985","https://openalex.org/W2092672051","https://openalex.org/W2093119385","https://openalex.org/W2099782613","https://openalex.org/W2104505071","https://openalex.org/W2105699887","https://openalex.org/W2106882534","https://openalex.org/W2114771311","https://openalex.org/W2127322768","https://openalex.org/W2127774996","https://openalex.org/W2130734541","https://openalex.org/W2132117253","https://openalex.org/W2132262344","https://openalex.org/W2132926880","https://openalex.org/W2135474317","https://openalex.org/W2147413871","https://openalex.org/W2166637863","https://openalex.org/W2170747616","https://openalex.org/W2171750584","https://openalex.org/W2267653167","https://openalex.org/W2290087641","https://openalex.org/W2320366123","https://openalex.org/W2401904509","https://openalex.org/W2438549965","https://openalex.org/W2525128349","https://openalex.org/W2560886679","https://openalex.org/W2567574149","https://openalex.org/W2574133781","https://openalex.org/W2609562273","https://openalex.org/W2804435636","https://openalex.org/W2917293204","https://openalex.org/W2917542248","https://openalex.org/W2938140497","https://openalex.org/W2958082387","https://openalex.org/W2964648167","https://openalex.org/W3000068290","https://openalex.org/W3022735223","https://openalex.org/W3031937800","https://openalex.org/W3033359651","https://openalex.org/W3038958209","https://openalex.org/W3046463683","https://openalex.org/W3081341939","https://openalex.org/W3083912006","https://openalex.org/W3109134151","https://openalex.org/W3160373643","https://openalex.org/W3196725191","https://openalex.org/W3209334653","https://openalex.org/W4200137031","https://openalex.org/W4243601081","https://openalex.org/W4249578022","https://openalex.org/W4283695185","https://openalex.org/W4287844716","https://openalex.org/W4306315481","https://openalex.org/W4308334875","https://openalex.org/W4309927665","https://openalex.org/W4315498754","https://openalex.org/W4383680001","https://openalex.org/W6652411589","https://openalex.org/W6685352449","https://openalex.org/W6782776776"],"related_works":["https://openalex.org/W2173732482","https://openalex.org/W2167922509","https://openalex.org/W4388652965","https://openalex.org/W2107903949","https://openalex.org/W12006945","https://openalex.org/W4386739095","https://openalex.org/W1981194976","https://openalex.org/W2377389766","https://openalex.org/W2042160423","https://openalex.org/W2089855844"],"abstract_inverted_index":{"Sequence":[0],"diversity":[1,36,45,61,91],"is":[2,20,25,87,113,210],"one":[3],"of":[4,11,34,58,64,101,145,164,169,177,185,202],"the":[5,9,32,99,114,119,125,133,149,152,165,174,178,186,195,203],"major":[6,134],"challenges":[7],"in":[8],"design":[10],"diagnostic,":[12],"prophylactic,":[13],"and":[14,28,83,144,151,194,224],"therapeutic":[15],"interventions":[16],"against":[17],"viruses.":[18,39],"DiMA":[19,40,53,156,170],"a":[21,55,73,105,214,219,226],"novel":[22],"tool":[23,209],"that":[24],"big":[26],"data-ready":[27],"designed":[29],"to":[30,78,89,124],"facilitate":[31],"dissection":[33],"sequence":[35,59,159],"dynamics":[37],"for":[38,68,162,173],"stands":[41],"out":[42],"from":[43],"other":[44],"analysis":[46],"tools":[47],"by":[48,62],"offering":[49],"various":[50,90],"unique":[51,153],"features.":[52],"provides":[54],"quantitative":[56],"overview":[57],"(DNA/RNA/protein)":[60],"use":[63],"Shannon's":[65],"entropy":[66],"corrected":[67],"size":[69],"bias,":[70],"applied":[71],"via":[72],"user-defined":[74],"k-mer":[75,85,107],"sliding":[76],"window":[77],"an":[79,111],"input":[80],"alignment":[81,108,175],"file,":[82],"each":[84],"position":[86],"dissected":[88],"motifs.":[92,166],"The":[93,127,167,208],"motifs":[94],"are":[95,121,130],"defined":[96],"based":[97],"on":[98],"probability":[100],"distinct":[102],"sequences":[103],"at":[104],"given":[106],"position,":[109],"whereby":[110],"index":[112],"predominant":[115],"sequence,":[116],"while":[117],"all":[118],"others":[120],"(total)":[122],"variants":[123,129,139],"index.":[126],"total":[128],"sub-classified":[131],"into":[132],"(most":[135],"common)":[136],"variant,":[137],"minor":[138],"(occurring":[140],"more":[141],"than":[142,148],"once":[143],"incidence":[146],"lower":[147],"major),":[150],"(singleton)":[154],"variants.":[155],"allows":[157],"user-defined,":[158],"metadata":[160],"enrichment":[161],"analyses":[163],"application":[168],"was":[171],"demonstrated":[172],"data":[176],"relatively":[179,196],"conserved":[180],"Spike":[181],"protein":[182],"(2,106,985":[183],"sequences)":[184],"severe":[187],"acute":[188],"respiratory":[189],"syndrome":[190],"coronavirus":[191],"2":[192],"(SARS-CoV-2)":[193],"highly":[197],"diverse":[198],"pol":[199],"gene":[200],"(2637)":[201],"human":[204],"immunodeficiency":[205],"virus-1":[206],"(HIV-1).":[207],"publicly":[211],"available":[212],"as":[213,218,225],"web":[215],"server":[216],"(https://dima.bezmialem.edu.tr),":[217],"Python":[220],"library":[221],"(via":[222,230],"PyPi)":[223],"command":[227],"line":[228],"client":[229],"GitHub).":[231]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":3}],"updated_date":"2026-05-21T06:26:12.895304","created_date":"2025-10-10T00:00:00"}
