{"id":"https://openalex.org/W2463628804","doi":"https://doi.org/10.1007/978-3-319-31744-1_38","title":"AC-DIAMOND: Accelerating Protein Alignment via Better SIMD Parallelization and Space-Efficient Indexing","display_name":"AC-DIAMOND: Accelerating Protein Alignment via Better SIMD Parallelization and Space-Efficient Indexing","publication_year":2016,"publication_date":"2016-01-01","ids":{"openalex":"https://openalex.org/W2463628804","doi":"https://doi.org/10.1007/978-3-319-31744-1_38","mag":"2463628804"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-319-31744-1_38","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-319-31744-1_38","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"book-chapter","indexed_in":["crossref"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5083639805","display_name":"Huijun Mai","orcid":null},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Huijun Mai","raw_affiliation_strings":["HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070418647","display_name":"Dinghua Li","orcid":null},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Dinghua Li","raw_affiliation_strings":["HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100376948","display_name":"Yifan Zhang","orcid":"https://orcid.org/0000-0002-8253-4596"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Yifan Zhang","raw_affiliation_strings":["HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102226130","display_name":"Henry Chi-Ming Leung","orcid":null},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Henry Chi-Ming Leung","raw_affiliation_strings":["HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5027440970","display_name":"Ruibang Luo","orcid":"https://orcid.org/0000-0001-9711-6533"},"institutions":[{"id":"https://openalex.org/I4210101356","display_name":"Beijing Founder Electronics (China)","ror":"https://ror.org/00nwrzz95","country_code":"CN","type":"company","lineage":["https://openalex.org/I4210101356"]},{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["CN","HK"],"is_corresponding":false,"raw_author_name":"Ruibang Luo","raw_affiliation_strings":["HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","L3 Bioinformatics Limited, Hong Kong, China","United Electronics Co., Ltd, Beijing, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]},{"raw_affiliation_string":"L3 Bioinformatics Limited, Hong Kong, China","institution_ids":[]},{"raw_affiliation_string":"United Electronics Co., Ltd, Beijing, China","institution_ids":["https://openalex.org/I4210101356"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033934413","display_name":"Hing\u2010Fung Ting","orcid":"https://orcid.org/0000-0002-2807-2351"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Hing-Fung Ting","raw_affiliation_strings":["HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5077116003","display_name":"Tak\u2010Wah Lam","orcid":"https://orcid.org/0000-0003-4676-8587"},"institutions":[{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Tak-Wah Lam","raw_affiliation_strings":["HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","L3 Bioinformatics Limited, Hong Kong, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"HKU-BGI Bioinformatics Algorithms and Core Technology Laboratory, Department of Computer Science, University of Hong Kong, Hong Kong, China","institution_ids":["https://openalex.org/I889458895"]},{"raw_affiliation_string":"L3 Bioinformatics Limited, Hong Kong, China","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":0.5385,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.62314151,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"426","last_page":"433"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9991999864578247,"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":0.9991999864578247,"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/T11269","display_name":"Algorithms and Data Compression","score":0.9919000267982483,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10885","display_name":"Gene expression and cancer classification","score":0.9904999732971191,"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/diamond","display_name":"Diamond","score":0.9010608792304993},{"id":"https://openalex.org/keywords/contig","display_name":"Contig","score":0.776715099811554},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.744880735874176},{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.7343562245368958},{"id":"https://openalex.org/keywords/search-engine-indexing","display_name":"Search engine indexing","score":0.7298976182937622},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.5770706534385681},{"id":"https://openalex.org/keywords/simd","display_name":"SIMD","score":0.4960959851741791},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.17215514183044434},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.15734851360321045},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.12199687957763672},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.11353647708892822},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.1011735200881958}],"concepts":[{"id":"https://openalex.org/C2776921476","wikidata":"https://www.wikidata.org/wiki/Q5283","display_name":"Diamond","level":2,"score":0.9010608792304993},{"id":"https://openalex.org/C59582021","wikidata":"https://www.wikidata.org/wiki/Q1128751","display_name":"Contig","level":4,"score":0.776715099811554},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.744880735874176},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.7343562245368958},{"id":"https://openalex.org/C75165309","wikidata":"https://www.wikidata.org/wiki/Q2258979","display_name":"Search engine indexing","level":2,"score":0.7298976182937622},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.5770706534385681},{"id":"https://openalex.org/C150552126","wikidata":"https://www.wikidata.org/wiki/Q339387","display_name":"SIMD","level":2,"score":0.4960959851741791},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.17215514183044434},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.15734851360321045},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.12199687957763672},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.11353647708892822},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.1011735200881958},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","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}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1007/978-3-319-31744-1_38","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-319-31744-1_38","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},{"id":"pmh:oai:hub.hku.hk:10722/229703","is_oa":false,"landing_page_url":"http://hdl.handle.net/10722/229703","pdf_url":null,"source":{"id":"https://openalex.org/S4377196271","display_name":"The HKU Scholars Hub (University of Hong Kong)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I889458895","host_organization_name":"University of Hong Kong","host_organization_lineage":["https://openalex.org/I889458895"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Conference_Paper"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","display_name":"Life in Land","score":0.5099999904632568}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":10,"referenced_works":["https://openalex.org/W2040805829","https://openalex.org/W2045204781","https://openalex.org/W2055043387","https://openalex.org/W2087064593","https://openalex.org/W2113679889","https://openalex.org/W2122210493","https://openalex.org/W2125229658","https://openalex.org/W2159591897","https://openalex.org/W2171289182","https://openalex.org/W2949577943"],"related_works":["https://openalex.org/W1994449010","https://openalex.org/W2330186985","https://openalex.org/W2950447380","https://openalex.org/W2055448750","https://openalex.org/W2345730070","https://openalex.org/W2107854630","https://openalex.org/W4319294554","https://openalex.org/W3134563641","https://openalex.org/W1986608492","https://openalex.org/W4394186879"],"abstract_inverted_index":null,"counts_by_year":[{"year":2018,"cited_by_count":1}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
