{"id":"https://openalex.org/W2901683642","doi":"https://doi.org/10.1186/s12859-018-2389-6","title":"DNA sequences alignment in multi-GPUs: acceleration and energy payoff","display_name":"DNA sequences alignment in multi-GPUs: acceleration and energy payoff","publication_year":2018,"publication_date":"2018-11-01","ids":{"openalex":"https://openalex.org/W2901683642","doi":"https://doi.org/10.1186/s12859-018-2389-6","mag":"2901683642","pmid":"https://pubmed.ncbi.nlm.nih.gov/30453877"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-018-2389-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2389-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2389-6","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2389-6","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5040312714","display_name":"Jes\u00fas P\u00e9rez-Serrano","orcid":null},"institutions":[{"id":"https://openalex.org/I82767444","display_name":"Universidad de M\u00e1laga","ror":"https://ror.org/036b2ww28","country_code":"ES","type":"education","lineage":["https://openalex.org/I82767444"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Jes\u00fas P\u00e9rez-Serrano","raw_affiliation_strings":["Computer Architecture Department, University of Malaga, Malaga, Spain"],"affiliations":[{"raw_affiliation_string":"Computer Architecture Department, University of Malaga, Malaga, Spain","institution_ids":["https://openalex.org/I82767444"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058639233","display_name":"Edans F. O. Sandes","orcid":"https://orcid.org/0000-0001-9502-7799"},"institutions":[{"id":"https://openalex.org/I150729083","display_name":"Universidade de Bras\u00edlia","ror":"https://ror.org/02xfp8v59","country_code":"BR","type":"education","lineage":["https://openalex.org/I150729083"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Edans Sandes","raw_affiliation_strings":["Computer Science Department, University of Brasilia, Brasilia, Brazil"],"affiliations":[{"raw_affiliation_string":"Computer Science Department, University of Brasilia, Brasilia, Brazil","institution_ids":["https://openalex.org/I150729083"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005717412","display_name":"Alba Cristina Magalh\u00e3es Alves de Melo","orcid":"https://orcid.org/0000-0001-5191-5209"},"institutions":[{"id":"https://openalex.org/I150729083","display_name":"Universidade de Bras\u00edlia","ror":"https://ror.org/02xfp8v59","country_code":"BR","type":"education","lineage":["https://openalex.org/I150729083"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Alba Cristina Magalhaes Alves de Melo","raw_affiliation_strings":["Computer Science Department, University of Brasilia, Brasilia, Brazil"],"affiliations":[{"raw_affiliation_string":"Computer Science Department, University of Brasilia, Brasilia, Brazil","institution_ids":["https://openalex.org/I150729083"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5001884113","display_name":"Manuel Ujald\u00f3n","orcid":"https://orcid.org/0000-0002-4656-6400"},"institutions":[{"id":"https://openalex.org/I82767444","display_name":"Universidad de M\u00e1laga","ror":"https://ror.org/036b2ww28","country_code":"ES","type":"education","lineage":["https://openalex.org/I82767444"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Manuel Ujald\u00f3n","raw_affiliation_strings":["Computer Architecture Department, University of Malaga, Malaga, Spain. ujaldon@uma.es","Computer Architecture Department, University of Malaga, Malaga, Spain"],"affiliations":[{"raw_affiliation_string":"Computer Architecture Department, University of Malaga, Malaga, Spain. ujaldon@uma.es","institution_ids":[]},{"raw_affiliation_string":"Computer Architecture Department, University of Malaga, Malaga, Spain","institution_ids":["https://openalex.org/I82767444"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5040312714"],"corresponding_institution_ids":["https://openalex.org/I82767444"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.3711,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.6149901,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"19","issue":"S14","first_page":"421","last_page":"421"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9944999814033508,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9886000156402588,"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":0.7800822257995605},{"id":"https://openalex.org/keywords/xeon-phi","display_name":"Xeon Phi","score":0.674664318561554},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.661366879940033},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.6540439128875732},{"id":"https://openalex.org/keywords/xeon","display_name":"Xeon","score":0.6264210343360901},{"id":"https://openalex.org/keywords/pairwise-comparison","display_name":"Pairwise comparison","score":0.5608265399932861},{"id":"https://openalex.org/keywords/efficient-energy-use","display_name":"Efficient energy use","score":0.5441835522651672},{"id":"https://openalex.org/keywords/hardware-acceleration","display_name":"Hardware acceleration","score":0.5337584614753723},{"id":"https://openalex.org/keywords/cuda","display_name":"CUDA","score":0.5040649175643921},{"id":"https://openalex.org/keywords/flops","display_name":"FLOPS","score":0.45875808596611023},{"id":"https://openalex.org/keywords/field-programmable-gate-array","display_name":"Field-programmable gate array","score":0.16304031014442444},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1454523801803589},{"id":"https://openalex.org/keywords/computer-hardware","display_name":"Computer hardware","score":0.13189393281936646},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.11098375916481018},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.09128370881080627}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7800822257995605},{"id":"https://openalex.org/C96972482","wikidata":"https://www.wikidata.org/wiki/Q1049168","display_name":"Xeon Phi","level":2,"score":0.674664318561554},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.661366879940033},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.6540439128875732},{"id":"https://openalex.org/C145108525","wikidata":"https://www.wikidata.org/wiki/Q656154","display_name":"Xeon","level":2,"score":0.6264210343360901},{"id":"https://openalex.org/C184898388","wikidata":"https://www.wikidata.org/wiki/Q1435712","display_name":"Pairwise comparison","level":2,"score":0.5608265399932861},{"id":"https://openalex.org/C2742236","wikidata":"https://www.wikidata.org/wiki/Q924713","display_name":"Efficient energy use","level":2,"score":0.5441835522651672},{"id":"https://openalex.org/C13164978","wikidata":"https://www.wikidata.org/wiki/Q600158","display_name":"Hardware acceleration","level":3,"score":0.5337584614753723},{"id":"https://openalex.org/C2778119891","wikidata":"https://www.wikidata.org/wiki/Q477690","display_name":"CUDA","level":2,"score":0.5040649175643921},{"id":"https://openalex.org/C3826847","wikidata":"https://www.wikidata.org/wiki/Q188768","display_name":"FLOPS","level":2,"score":0.45875808596611023},{"id":"https://openalex.org/C42935608","wikidata":"https://www.wikidata.org/wiki/Q190411","display_name":"Field-programmable gate array","level":2,"score":0.16304031014442444},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1454523801803589},{"id":"https://openalex.org/C9390403","wikidata":"https://www.wikidata.org/wiki/Q3966","display_name":"Computer hardware","level":1,"score":0.13189393281936646},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.11098375916481018},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.09128370881080627},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000054","descriptor_name":"Acceleration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000054","descriptor_name":"Acceleration","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000054","descriptor_name":"Acceleration","qualifier_ui":null,"qualifier_name":null,"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":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002679","descriptor_name":"Pan troglodytes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002679","descriptor_name":"Pan troglodytes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002679","descriptor_name":"Pan troglodytes","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D003196","descriptor_name":"Computer Graphics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011211","descriptor_name":"Electric Power Supplies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011211","descriptor_name":"Electric Power Supplies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011211","descriptor_name":"Electric Power Supplies","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013997","descriptor_name":"Time Factors","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-018-2389-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2389-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2389-6","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:30453877","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30453877","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:62e3e43cb2cd4809951920df14984514","is_oa":true,"landing_page_url":"https://doaj.org/article/62e3e43cb2cd4809951920df14984514","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 19, Iss S14, Pp 161-176 (2018)","raw_type":"article"},{"id":"pmh:oai:europepmc.org:5218632","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6245493","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-018-2389-6","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-018-2389-6","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-018-2389-6","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy","score":0.9100000262260437}],"awards":[],"funders":[{"id":"https://openalex.org/F4320309480","display_name":"Nvidia","ror":"https://ror.org/03jdj4y14"},{"id":"https://openalex.org/F4320311265","display_name":"Universidad de M\u00e1laga","ror":"https://ror.org/036b2ww28"},{"id":"https://openalex.org/F4320321585","display_name":"Universidad Complutense de Madrid","ror":"https://ror.org/02p0gd045"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2901683642.pdf","grobid_xml":"https://content.openalex.org/works/W2901683642.grobid-xml"},"referenced_works_count":44,"referenced_works":["https://openalex.org/W199461065","https://openalex.org/W938539187","https://openalex.org/W1244930767","https://openalex.org/W1269240888","https://openalex.org/W1986228396","https://openalex.org/W2003529142","https://openalex.org/W2015292449","https://openalex.org/W2021342241","https://openalex.org/W2029195137","https://openalex.org/W2036287649","https://openalex.org/W2040528486","https://openalex.org/W2052601433","https://openalex.org/W2055043387","https://openalex.org/W2059689114","https://openalex.org/W2063315665","https://openalex.org/W2068448872","https://openalex.org/W2074231493","https://openalex.org/W2081678769","https://openalex.org/W2087064593","https://openalex.org/W2093931624","https://openalex.org/W2095870655","https://openalex.org/W2096945214","https://openalex.org/W2098232690","https://openalex.org/W2108215151","https://openalex.org/W2115324785","https://openalex.org/W2116715773","https://openalex.org/W2147050678","https://openalex.org/W2154969437","https://openalex.org/W2158714788","https://openalex.org/W2165654401","https://openalex.org/W2170564629","https://openalex.org/W2269454992","https://openalex.org/W2285697638","https://openalex.org/W2317915098","https://openalex.org/W2329974220","https://openalex.org/W2344543892","https://openalex.org/W2480919886","https://openalex.org/W2591087636","https://openalex.org/W2591798726","https://openalex.org/W2598572755","https://openalex.org/W2599597882","https://openalex.org/W3214380909","https://openalex.org/W4240988968","https://openalex.org/W4245668478"],"related_works":["https://openalex.org/W2739740241","https://openalex.org/W1974923383","https://openalex.org/W2085105049","https://openalex.org/W2475524688","https://openalex.org/W2526069705","https://openalex.org/W2024016913","https://openalex.org/W2019153376","https://openalex.org/W2981664121","https://openalex.org/W2796552083","https://openalex.org/W2949197156"],"abstract_inverted_index":{"We":[0],"find":[1],"GPUs":[2,25],"to":[3,15],"be":[4],"an":[5],"order":[6],"of":[7],"magnitude":[8],"ahead":[9],"in":[10,30],"performance":[11],"per":[12],"watt":[13],"compared":[14],"Xeon":[16],"Phis.":[17],"Finally,":[18],"versus":[19],"typical":[20],"low-power":[21],"devices":[22],"like":[23],"FPGAs,":[24],"keep":[26],"similar":[27],"GFLOPS/w":[28],"ratios":[29],"2017":[31],"on":[32],"a":[33],"five":[34],"times":[35],"faster":[36],"execution.":[37]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":2}],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}