{"id":"https://openalex.org/W4401408782","doi":"https://doi.org/10.1145/3673038.3673158","title":"Hardware Acceleration of Minimap2 Genomic Sequence Alignment Algorithm","display_name":"Hardware Acceleration of Minimap2 Genomic Sequence Alignment Algorithm","publication_year":2024,"publication_date":"2024-08-08","ids":{"openalex":"https://openalex.org/W4401408782","doi":"https://doi.org/10.1145/3673038.3673158"},"language":"en","primary_location":{"id":"doi:10.1145/3673038.3673158","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3673038.3673158","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 53rd International Conference on Parallel Processing","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.1145/3673038.3673158","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5103969489","display_name":"Jie Cheng","orcid":null},"institutions":[{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Jie Cheng","raw_affiliation_strings":["School of Electronic Information and Communications, Huazhong University of Science and Technology, China"],"affiliations":[{"raw_affiliation_string":"School of Electronic Information and Communications, Huazhong University of Science and Technology, China","institution_ids":["https://openalex.org/I47720641"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5015999084","display_name":"Lifu Hu","orcid":null},"institutions":[{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lifu Hu","raw_affiliation_strings":["School of Electronic Information and Communications, Huazhong University of Science and Technology, China"],"affiliations":[{"raw_affiliation_string":"School of Electronic Information and Communications, Huazhong University of Science and Technology, China","institution_ids":["https://openalex.org/I47720641"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5095746713","display_name":"Wei Xu","orcid":"https://orcid.org/0000-0002-9271-0223"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wei Xu","raw_affiliation_strings":["Institute for Interdisciplinary Information Sciences, Tsinghua University, China"],"affiliations":[{"raw_affiliation_string":"Institute for Interdisciplinary Information Sciences, Tsinghua University, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103165307","display_name":"Hanhua Chen","orcid":"https://orcid.org/0000-0002-8366-7438"},"institutions":[{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hanhua Chen","raw_affiliation_strings":["School of Computer Science and Technology, Huazhong University of Science and Technology, China"],"affiliations":[{"raw_affiliation_string":"School of Computer Science and Technology, Huazhong University of Science and Technology, China","institution_ids":["https://openalex.org/I47720641"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101772406","display_name":"Tian Xia","orcid":"https://orcid.org/0000-0003-1721-6126"},"institutions":[{"id":"https://openalex.org/I47720641","display_name":"Huazhong University of Science and Technology","ror":"https://ror.org/00p991c53","country_code":"CN","type":"education","lineage":["https://openalex.org/I47720641"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Tian Xia","raw_affiliation_strings":["School of Artificial Intelligence and Automation, Huazhong University of Science and Technology, China"],"affiliations":[{"raw_affiliation_string":"School of Artificial Intelligence and Automation, Huazhong University of Science and Technology, China","institution_ids":["https://openalex.org/I47720641"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5103969489"],"corresponding_institution_ids":["https://openalex.org/I47720641"],"apc_list":null,"apc_paid":null,"fwci":1.0976,"has_fulltext":false,"cited_by_count":4,"citation_normalized_percentile":{"value":0.76698934,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":98},"biblio":{"volume":null,"issue":null,"first_page":"887","last_page":"897"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9986000061035156,"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":0.9986000061035156,"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":0.9904000163078308,"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/T13937","display_name":"Genetics, Bioinformatics, and Biomedical Research","score":0.9884999990463257,"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/acceleration","display_name":"Acceleration","score":0.8059567809104919},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6983684301376343},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.591076135635376},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5655356645584106},{"id":"https://openalex.org/keywords/hardware-acceleration","display_name":"Hardware acceleration","score":0.4365483820438385},{"id":"https://openalex.org/keywords/algorithm-design","display_name":"Algorithm design","score":0.4141128659248352},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.39743974804878235},{"id":"https://openalex.org/keywords/computer-hardware","display_name":"Computer hardware","score":0.18216192722320557},{"id":"https://openalex.org/keywords/field-programmable-gate-array","display_name":"Field-programmable gate array","score":0.14971157908439636},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.0698135495185852},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.062286049127578735}],"concepts":[{"id":"https://openalex.org/C117896860","wikidata":"https://www.wikidata.org/wiki/Q11376","display_name":"Acceleration","level":2,"score":0.8059567809104919},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6983684301376343},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.591076135635376},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5655356645584106},{"id":"https://openalex.org/C13164978","wikidata":"https://www.wikidata.org/wiki/Q600158","display_name":"Hardware acceleration","level":3,"score":0.4365483820438385},{"id":"https://openalex.org/C106516650","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm design","level":2,"score":0.4141128659248352},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.39743974804878235},{"id":"https://openalex.org/C9390403","wikidata":"https://www.wikidata.org/wiki/Q3966","display_name":"Computer hardware","level":1,"score":0.18216192722320557},{"id":"https://openalex.org/C42935608","wikidata":"https://www.wikidata.org/wiki/Q190411","display_name":"Field-programmable gate array","level":2,"score":0.14971157908439636},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0698135495185852},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.062286049127578735},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C74650414","wikidata":"https://www.wikidata.org/wiki/Q11397","display_name":"Classical mechanics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/3673038.3673158","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3673038.3673158","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 53rd International Conference on Parallel Processing","raw_type":"proceedings-article"}],"best_oa_location":{"id":"doi:10.1145/3673038.3673158","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3673038.3673158","pdf_url":null,"source":null,"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 53rd International Conference on Parallel Processing","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":13,"referenced_works":["https://openalex.org/W2023226967","https://openalex.org/W2068448872","https://openalex.org/W2111295912","https://openalex.org/W2194172909","https://openalex.org/W2218392081","https://openalex.org/W2789843538","https://openalex.org/W2950629094","https://openalex.org/W2964045878","https://openalex.org/W3176565954","https://openalex.org/W4214546858","https://openalex.org/W4317698849","https://openalex.org/W4361273568","https://openalex.org/W6700769356"],"related_works":["https://openalex.org/W2390829436","https://openalex.org/W1989791859","https://openalex.org/W2565094479","https://openalex.org/W602859758","https://openalex.org/W2006439817","https://openalex.org/W1971289376","https://openalex.org/W2379101322","https://openalex.org/W1992553864","https://openalex.org/W2776207444","https://openalex.org/W2146872326"],"abstract_inverted_index":{"Sequence":[0],"alignment,":[1],"a":[2,38,58],"crucial":[3],"task":[4],"in":[5,24],"genome":[6],"analysis":[7],"for":[8,43],"downstream":[9],"applications":[10],"such":[11],"as":[12],"mutation":[13],"detection,":[14],"faces":[15],"challenges":[16],"due":[17],"to":[18,47,64],"longer":[19],"sequences":[20],"and":[21],"increased":[22],"errors":[23],"the":[25,34,53,66],"era":[26],"of":[27,36],"third-generation":[28],"sequencing.":[29],"This":[30],"paper":[31],"focuses":[32],"on":[33],"optimization":[35],"Minimap2,":[37],"widely":[39],"used":[40],"alignment":[41],"algorithm":[42],"mapping":[44],"variable-length":[45],"reads":[46],"extensive":[48],"reference":[49],"sequences.":[50],"To":[51],"enhance":[52],"algorithm\u2019s":[54],"performance,":[55],"we":[56],"introduce":[57],"novel":[59],"approach":[60],"leveraging":[61],"FPGA":[62],"technology":[63],"expedite":[65],"time-consuming":[67],"extension":[68],"step.":[69]},"counts_by_year":[{"year":2025,"cited_by_count":4}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
