{"id":"https://openalex.org/W4413447408","doi":"https://doi.org/10.1145/3763229","title":"A Survey on Sequence Alignment Algorithms and State-of-the-Art Aligners","display_name":"A Survey on Sequence Alignment Algorithms and State-of-the-Art Aligners","publication_year":2025,"publication_date":"2025-08-23","ids":{"openalex":"https://openalex.org/W4413447408","doi":"https://doi.org/10.1145/3763229"},"language":"en","primary_location":{"id":"doi:10.1145/3763229","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3763229","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3763229","source":{"id":"https://openalex.org/S157921468","display_name":"ACM Computing Surveys","issn_l":"0360-0300","issn":["0360-0300","1557-7341"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319798","host_organization_name":"Association for Computing Machinery","host_organization_lineage":["https://openalex.org/P4310319798"],"host_organization_lineage_names":["Association for Computing Machinery"],"type":"journal"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM Computing Surveys","raw_type":"journal-article"},"type":"review","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://dl.acm.org/doi/pdf/10.1145/3763229","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5082833695","display_name":"Konstantinos Prousalis","orcid":"https://orcid.org/0000-0002-6810-1719"},"institutions":[{"id":"https://openalex.org/I21370196","display_name":"Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88","country_code":"GR","type":"education","lineage":["https://openalex.org/I21370196"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Konstantinos Prousalis","raw_affiliation_strings":["Department of Informatics, Aristotle University of Thessaloniki","Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece"],"raw_orcid":"https://orcid.org/0000-0002-6810-1719","affiliations":[{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki","institution_ids":["https://openalex.org/I21370196"]},{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece","institution_ids":["https://openalex.org/I21370196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5020851132","display_name":"Konstantinos Georgiou","orcid":"https://orcid.org/0000-0002-9851-1196"},"institutions":[{"id":"https://openalex.org/I21370196","display_name":"Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88","country_code":"GR","type":"education","lineage":["https://openalex.org/I21370196"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Konstantinos Georgiou","raw_affiliation_strings":["Department of Informatics, Aristotle University of Thessaloniki","Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece"],"raw_orcid":"https://orcid.org/0000-0002-9851-1196","affiliations":[{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki","institution_ids":["https://openalex.org/I21370196"]},{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece","institution_ids":["https://openalex.org/I21370196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102750416","display_name":"\u0391\u03bd\u03b4\u03c1\u03ad\u03b1\u03c2 \u039a\u03b1\u03bb\u03bf\u03b3\u03b5\u03c1\u03cc\u03c0\u03bf\u03c5\u03bb\u03bf\u03c2","orcid":"https://orcid.org/0000-0001-6526-5606"},"institutions":[{"id":"https://openalex.org/I21370196","display_name":"Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88","country_code":"GR","type":"education","lineage":["https://openalex.org/I21370196"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Andreas Kalogeropoulos","raw_affiliation_strings":["Department of Informatics, Aristotle University of Thessaloniki","Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece"],"raw_orcid":"https://orcid.org/0000-0001-6526-5606","affiliations":[{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki","institution_ids":["https://openalex.org/I21370196"]},{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece","institution_ids":["https://openalex.org/I21370196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015178106","display_name":"Dimitris Ntalaperas","orcid":"https://orcid.org/0000-0001-7560-3912"},"institutions":[{"id":"https://openalex.org/I21370196","display_name":"Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88","country_code":"GR","type":"education","lineage":["https://openalex.org/I21370196"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Dimitrios Ntalaperas","raw_affiliation_strings":["Department of Informatics, Aristotle University of Thessaloniki","Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece"],"raw_orcid":"https://orcid.org/0000-0001-7560-3912","affiliations":[{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki","institution_ids":["https://openalex.org/I21370196"]},{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece","institution_ids":["https://openalex.org/I21370196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087517264","display_name":"N. Konofaos","orcid":"https://orcid.org/0000-0003-2949-1184"},"institutions":[{"id":"https://openalex.org/I21370196","display_name":"Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88","country_code":"GR","type":"education","lineage":["https://openalex.org/I21370196"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Nikos Konofaos","raw_affiliation_strings":["Department of Informatics, Aristotle University of Thessaloniki","Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece"],"raw_orcid":"https://orcid.org/0000-0003-2949-1184","affiliations":[{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki","institution_ids":["https://openalex.org/I21370196"]},{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece","institution_ids":["https://openalex.org/I21370196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5008070273","display_name":"Lefteris Angelis","orcid":"https://orcid.org/0000-0002-6677-4039"},"institutions":[{"id":"https://openalex.org/I21370196","display_name":"Aristotle University of Thessaloniki","ror":"https://ror.org/02j61yw88","country_code":"GR","type":"education","lineage":["https://openalex.org/I21370196"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"Lefteris Angelis","raw_affiliation_strings":["Department of Informatics, Aristotle University of Thessaloniki","Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece"],"raw_orcid":"https://orcid.org/0000-0002-6677-4039","affiliations":[{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki","institution_ids":["https://openalex.org/I21370196"]},{"raw_affiliation_string":"Department of Informatics, Aristotle University of Thessaloniki, Thessalonike, Greece","institution_ids":["https://openalex.org/I21370196"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070153650","display_name":"Christos Papalitsas","orcid":"https://orcid.org/0000-0003-0467-796X"},"institutions":[{"id":"https://openalex.org/I180857899","display_name":"Pfizer (United States)","ror":"https://ror.org/01xdqrp08","country_code":"US","type":"company","lineage":["https://openalex.org/I180857899"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Christos Papalitsas","raw_affiliation_strings":["Center for Digital Innovation, Pfizer Inc","Center for Digital Innovation, Pfizer Inc, Thessaloniki, Greece"],"raw_orcid":"https://orcid.org/0000-0003-0467-796X","affiliations":[{"raw_affiliation_string":"Center for Digital Innovation, Pfizer Inc","institution_ids":["https://openalex.org/I180857899"]},{"raw_affiliation_string":"Center for Digital Innovation, Pfizer Inc, Thessaloniki, Greece","institution_ids":["https://openalex.org/I180857899"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5085045896","display_name":"Thanos G. Stavropoulos","orcid":"https://orcid.org/0000-0003-2389-4329"},"institutions":[{"id":"https://openalex.org/I180857899","display_name":"Pfizer (United States)","ror":"https://ror.org/01xdqrp08","country_code":"US","type":"company","lineage":["https://openalex.org/I180857899"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Thanos Stavropoulos","raw_affiliation_strings":["Center for Digital Innovation, Pfizer Inc","Center for Digital Innovation, Pfizer Inc, Thessaloniki, Greece"],"raw_orcid":"https://orcid.org/0000-0003-2389-4329","affiliations":[{"raw_affiliation_string":"Center for Digital Innovation, Pfizer Inc","institution_ids":["https://openalex.org/I180857899"]},{"raw_affiliation_string":"Center for Digital Innovation, Pfizer Inc, Thessaloniki, Greece","institution_ids":["https://openalex.org/I180857899"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5119395992","display_name":"Nico Gariboldi","orcid":null},"institutions":[{"id":"https://openalex.org/I180857899","display_name":"Pfizer (United States)","ror":"https://ror.org/01xdqrp08","country_code":"US","type":"company","lineage":["https://openalex.org/I180857899"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nico Gariboldi","raw_affiliation_strings":["Center for Digital Innovation, Pfizer Inc","Center for Digital Innovation, Pfizer Inc, Thessaloniki, Greece"],"raw_orcid":"https://orcid.org/0009-0003-5121-2521","affiliations":[{"raw_affiliation_string":"Center for Digital Innovation, Pfizer Inc","institution_ids":["https://openalex.org/I180857899"]},{"raw_affiliation_string":"Center for Digital Innovation, Pfizer Inc, Thessaloniki, Greece","institution_ids":["https://openalex.org/I180857899"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":9,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.576,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.69423989,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":91,"max":95},"biblio":{"volume":"58","issue":"3","first_page":"1","last_page":"40"},"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9919999837875366,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9916999936103821,"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":0.7979365587234497},{"id":"https://openalex.org/keywords/alignment-free-sequence-analysis","display_name":"Alignment-free sequence analysis","score":0.6850466132164001},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6526793241500854},{"id":"https://openalex.org/keywords/benchmarking","display_name":"Benchmarking","score":0.6488412618637085},{"id":"https://openalex.org/keywords/heuristic","display_name":"Heuristic","score":0.5476781129837036},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.5271512866020203},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.5099886655807495},{"id":"https://openalex.org/keywords/sequence-assembly","display_name":"Sequence assembly","score":0.46619999408721924},{"id":"https://openalex.org/keywords/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.4637127220630646},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4310246706008911},{"id":"https://openalex.org/keywords/state","display_name":"State (computer science)","score":0.4271150529384613},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.32974129915237427},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.2607378363609314},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09865269064903259},{"id":"https://openalex.org/keywords/transcriptome","display_name":"Transcriptome","score":0.09812983870506287}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7979365587234497},{"id":"https://openalex.org/C180384323","wikidata":"https://www.wikidata.org/wiki/Q16335137","display_name":"Alignment-free sequence analysis","level":5,"score":0.6850466132164001},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6526793241500854},{"id":"https://openalex.org/C86251818","wikidata":"https://www.wikidata.org/wiki/Q816754","display_name":"Benchmarking","level":2,"score":0.6488412618637085},{"id":"https://openalex.org/C173801870","wikidata":"https://www.wikidata.org/wiki/Q201413","display_name":"Heuristic","level":2,"score":0.5476781129837036},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.5271512866020203},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.5099886655807495},{"id":"https://openalex.org/C18949551","wikidata":"https://www.wikidata.org/wiki/Q740578","display_name":"Sequence assembly","level":5,"score":0.46619999408721924},{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.4637127220630646},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4310246706008911},{"id":"https://openalex.org/C48103436","wikidata":"https://www.wikidata.org/wiki/Q599031","display_name":"State (computer science)","level":2,"score":0.4271150529384613},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.32974129915237427},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.2607378363609314},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09865269064903259},{"id":"https://openalex.org/C162317418","wikidata":"https://www.wikidata.org/wiki/Q252857","display_name":"Transcriptome","level":4,"score":0.09812983870506287},{"id":"https://openalex.org/C162853370","wikidata":"https://www.wikidata.org/wiki/Q39809","display_name":"Marketing","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0},{"id":"https://openalex.org/C144133560","wikidata":"https://www.wikidata.org/wiki/Q4830453","display_name":"Business","level":0,"score":0.0},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3763229","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3763229","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3763229","source":{"id":"https://openalex.org/S157921468","display_name":"ACM Computing Surveys","issn_l":"0360-0300","issn":["0360-0300","1557-7341"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319798","host_organization_name":"Association for Computing Machinery","host_organization_lineage":["https://openalex.org/P4310319798"],"host_organization_lineage_names":["Association for Computing Machinery"],"type":"journal"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM Computing Surveys","raw_type":"journal-article"}],"best_oa_location":{"id":"doi:10.1145/3763229","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3763229","pdf_url":"https://dl.acm.org/doi/pdf/10.1145/3763229","source":{"id":"https://openalex.org/S157921468","display_name":"ACM Computing Surveys","issn_l":"0360-0300","issn":["0360-0300","1557-7341"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319798","host_organization_name":"Association for Computing Machinery","host_organization_lineage":["https://openalex.org/P4310319798"],"host_organization_lineage_names":["Association for Computing Machinery"],"type":"journal"},"license":"public-domain","license_id":"https://openalex.org/licenses/public-domain","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"ACM Computing Surveys","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4413447408.pdf","grobid_xml":"https://content.openalex.org/works/W4413447408.grobid-xml"},"referenced_works_count":194,"referenced_works":["https://openalex.org/W103378714","https://openalex.org/W1527979595","https://openalex.org/W1556105006","https://openalex.org/W1590240800","https://openalex.org/W1604948685","https://openalex.org/W1639032689","https://openalex.org/W1760648215","https://openalex.org/W1834968294","https://openalex.org/W1980913156","https://openalex.org/W1982693868","https://openalex.org/W1983265703","https://openalex.org/W1985871111","https://openalex.org/W1988072419","https://openalex.org/W1991330646","https://openalex.org/W1994325306","https://openalex.org/W2001573278","https://openalex.org/W2002638840","https://openalex.org/W2004178884","https://openalex.org/W2004644786","https://openalex.org/W2021517348","https://openalex.org/W2025648894","https://openalex.org/W2028522556","https://openalex.org/W2028624874","https://openalex.org/W2029848394","https://openalex.org/W2034767282","https://openalex.org/W2038411763","https://openalex.org/W2041384744","https://openalex.org/W2050375132","https://openalex.org/W2055043387","https://openalex.org/W2056251063","https://openalex.org/W2060842569","https://openalex.org/W2067852761","https://openalex.org/W2068448872","https://openalex.org/W2070948488","https://openalex.org/W2074231493","https://openalex.org/W2077222448","https://openalex.org/W2078992725","https://openalex.org/W2079671823","https://openalex.org/W2087064593","https://openalex.org/W2091384774","https://openalex.org/W2096173343","https://openalex.org/W2096441981","https://openalex.org/W2097341408","https://openalex.org/W2097382368","https://openalex.org/W2097706568","https://openalex.org/W2101418959","https://openalex.org/W2102245393","https://openalex.org/W2102278945","https://openalex.org/W2103441770","https://openalex.org/W2103903744","https://openalex.org/W2106882534","https://openalex.org/W2107700484","https://openalex.org/W2111551123","https://openalex.org/W2112113834","https://openalex.org/W2114392707","https://openalex.org/W2118936998","https://openalex.org/W2119270998","https://openalex.org/W2119305840","https://openalex.org/W2120048439","https://openalex.org/W2120866529","https://openalex.org/W2121211805","https://openalex.org/W2121691652","https://openalex.org/W2124975206","https://openalex.org/W2124985265","https://openalex.org/W2127322768","https://openalex.org/W2127774996","https://openalex.org/W2128793361","https://openalex.org/W2132926880","https://openalex.org/W2135621733","https://openalex.org/W2139898631","https://openalex.org/W2140729960","https://openalex.org/W2140872496","https://openalex.org/W2143357251","https://openalex.org/W2144362290","https://openalex.org/W2145268834","https://openalex.org/W2147461064","https://openalex.org/W2151904894","https://openalex.org/W2152331922","https://openalex.org/W2153527981","https://openalex.org/W2157552136","https://openalex.org/W2158714788","https://openalex.org/W2158862451","https://openalex.org/W2161299051","https://openalex.org/W2162057434","https://openalex.org/W2162758337","https://openalex.org/W2162923930","https://openalex.org/W2166718648","https://openalex.org/W2168894761","https://openalex.org/W2169456326","https://openalex.org/W2169602699","https://openalex.org/W2170747616","https://openalex.org/W2171111703","https://openalex.org/W2171657939","https://openalex.org/W2172191413","https://openalex.org/W2177379918","https://openalex.org/W2194172909","https://openalex.org/W2258865027","https://openalex.org/W2267533067","https://openalex.org/W2313584161","https://openalex.org/W2318233773","https://openalex.org/W2396849069","https://openalex.org/W2402064298","https://openalex.org/W2410559135","https://openalex.org/W2489219000","https://openalex.org/W2526975281","https://openalex.org/W2544977505","https://openalex.org/W2606325896","https://openalex.org/W2616987781","https://openalex.org/W2658731768","https://openalex.org/W2678953459","https://openalex.org/W2693724601","https://openalex.org/W2730968108","https://openalex.org/W2750168540","https://openalex.org/W2750309557","https://openalex.org/W2768022300","https://openalex.org/W2780263532","https://openalex.org/W2789843538","https://openalex.org/W2793919468","https://openalex.org/W2795792832","https://openalex.org/W2803360717","https://openalex.org/W2806704039","https://openalex.org/W2844506014","https://openalex.org/W2888472335","https://openalex.org/W2907072946","https://openalex.org/W2943334384","https://openalex.org/W2944782957","https://openalex.org/W2946145748","https://openalex.org/W2947792849","https://openalex.org/W2955890093","https://openalex.org/W2963103847","https://openalex.org/W2964403049","https://openalex.org/W2964849163","https://openalex.org/W2967236067","https://openalex.org/W2969180072","https://openalex.org/W2975291814","https://openalex.org/W2982461819","https://openalex.org/W2985539984","https://openalex.org/W3000573087","https://openalex.org/W3001271520","https://openalex.org/W3003616697","https://openalex.org/W3005014603","https://openalex.org/W3011241603","https://openalex.org/W3011945786","https://openalex.org/W3015426780","https://openalex.org/W3016020348","https://openalex.org/W3016836106","https://openalex.org/W3021341123","https://openalex.org/W3027238885","https://openalex.org/W3082684881","https://openalex.org/W3090813340","https://openalex.org/W3093613458","https://openalex.org/W3094346795","https://openalex.org/W3095583226","https://openalex.org/W3109134151","https://openalex.org/W3123893780","https://openalex.org/W3125883978","https://openalex.org/W3147254695","https://openalex.org/W3148035389","https://openalex.org/W3152981155","https://openalex.org/W3172490830","https://openalex.org/W3177472573","https://openalex.org/W3193844559","https://openalex.org/W3193928773","https://openalex.org/W3204611084","https://openalex.org/W3210608097","https://openalex.org/W4200611247","https://openalex.org/W4205788935","https://openalex.org/W4205911826","https://openalex.org/W4210851756","https://openalex.org/W4220765419","https://openalex.org/W4224215085","https://openalex.org/W4247053599","https://openalex.org/W4252353823","https://openalex.org/W4281619629","https://openalex.org/W4281704601","https://openalex.org/W4289313383","https://openalex.org/W4292083457","https://openalex.org/W6630989405","https://openalex.org/W6631478494","https://openalex.org/W6631638067","https://openalex.org/W6662566159","https://openalex.org/W6668663273","https://openalex.org/W6673038627","https://openalex.org/W6674373410","https://openalex.org/W6675550713","https://openalex.org/W6676286517","https://openalex.org/W6677918416","https://openalex.org/W6677951329","https://openalex.org/W6678480046","https://openalex.org/W6685184340","https://openalex.org/W6723102127","https://openalex.org/W6727771595","https://openalex.org/W6728756228","https://openalex.org/W6746888402"],"related_works":["https://openalex.org/W2051969447","https://openalex.org/W2133116680","https://openalex.org/W2111937814","https://openalex.org/W2141411672","https://openalex.org/W2091678889","https://openalex.org/W2194132979","https://openalex.org/W1482324242","https://openalex.org/W187239587","https://openalex.org/W88386512","https://openalex.org/W2079145549"],"abstract_inverted_index":{"Vast":[0],"amounts":[1],"of":[2,30,62,87],"genomic,":[3],"proteomic,":[4],"transcriptomics":[5],"and":[6,37,65,94,107,131,137],"other":[7],"forms,":[8],"commonly":[9],"referred":[10],"to":[11,23,34,55],"as":[12,100],"-omics":[13],"data,":[14],"are":[15,92],"generated":[16],"daily":[17],"in":[18,42,111,134],"an":[19,47,119],"unprecedented":[20],"way":[21],"thanks":[22],"high-throughput":[24],"Next":[25],"Generation":[26],"Sequencing":[27],"technologies.":[28],"One":[29],"the":[31,60,81,88,125,138],"main":[32],"processes":[33],"generate":[35],"value":[36],"insights":[38],"from":[39],"this":[40,79],"data":[41],"bioinformatics":[43],"is":[44],"\u201csequence":[45],"alignment\u201d,":[46],"algorithmic":[48,103],"routine":[49],"that":[50,73],"matches":[51],"a":[52,56,70,112,132],"\u201creference\u201d":[53],"sequence":[54,67,84],"larger":[57],"sequence.":[58],"Despite":[59],"plethora":[61],"approaches,":[63],"pairwise":[64],"multiple":[66],"alignment":[68,85,105],"remain":[69],"complex":[71],"problem":[72],"requires":[74],"high":[75],"computational":[76],"power.":[77],"In":[78],"article,":[80],"most":[82],"prominent":[83],"approaches":[86,130,136],"past":[89],"three":[90],"decades":[91],"reviewed":[93],"categorized,":[95],"examining":[96],"different":[97],"aspects,":[98],"such":[99],"their":[101],"overall":[102],"synthesis,":[104],"quality":[106],"performance":[108],"benchmarking":[109],"tests":[110],"uniform":[113],"way.":[114],"The":[115],"latest":[116],"trends":[117],"reveal":[118],"increased":[120],"specialization":[121],"on":[122],"biology-based":[123],"directions,":[124],"need":[126],"for":[127],"alternative":[128],"heuristic":[129],"promise":[133],"optics-enabled":[135],"quantum":[139],"computing":[140],"paradigm":[141],"shift.":[142]},"counts_by_year":[{"year":2025,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
