{"id":"https://openalex.org/W1985379913","doi":"https://doi.org/10.1155/2012/201378","title":"A Protein Sequence Analysis Hardware Accelerator Based on Divergences","display_name":"A Protein Sequence Analysis Hardware Accelerator Based on Divergences","publication_year":2012,"publication_date":"2012-01-01","ids":{"openalex":"https://openalex.org/W1985379913","doi":"https://doi.org/10.1155/2012/201378","mag":"1985379913"},"language":"en","primary_location":{"id":"doi:10.1155/2012/201378","is_oa":true,"landing_page_url":"http://doi.org/10.1155/2012/201378","pdf_url":"https://downloads.hindawi.com/journals/ijrc/2012/201378.pdf","source":{"id":"https://openalex.org/S194867674","display_name":"International Journal of Reconfigurable Computing","issn_l":"1687-7195","issn":["1687-7195","1687-7209"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Reconfigurable Computing","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://downloads.hindawi.com/journals/ijrc/2012/201378.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5047222514","display_name":"Juan Fernando Eusse","orcid":null},"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":true,"raw_author_name":"Juan Fernando Eusse","raw_affiliation_strings":["Electrical Engineering Department, University of Brasilia, Brasilia, DF 70910-900, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Electrical Engineering Department, University of Brasilia, Brasilia, DF 70910-900, Brazil","institution_ids":["https://openalex.org/I150729083"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5070434727","display_name":"Nahri Moreano","orcid":"https://orcid.org/0000-0001-8305-4677"},"institutions":[{"id":"https://openalex.org/I122558511","display_name":"Universidade Federal de Mato Grosso do Sul","ror":"https://ror.org/0366d2847","country_code":"BR","type":"education","lineage":["https://openalex.org/I122558511"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Nahri Moreano","raw_affiliation_strings":["School of Computing, Federal University of Mato Grosso do Sul, Campo Grande, MS 79070-900, Brazil"],"raw_orcid":"https://orcid.org/0000-0001-8305-4677","affiliations":[{"raw_affiliation_string":"School of Computing, Federal University of Mato Grosso do Sul, Campo Grande, MS 79070-900, Brazil","institution_ids":["https://openalex.org/I122558511"]}]},{"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, DF 70910-900, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Computer Science Department, University of Brasilia, Brasilia, DF 70910-900, Brazil","institution_ids":["https://openalex.org/I150729083"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5019378528","display_name":"Ricardo Pezzuol Jacobi","orcid":"https://orcid.org/0000-0002-4520-7641"},"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":"Ricardo Pezzuol Jacobi","raw_affiliation_strings":["UnB Gama School, University of Brasilia, Gama, DF 72405-610, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UnB Gama School, University of Brasilia, Gama, DF 72405-610, Brazil","institution_ids":["https://openalex.org/I150729083"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5047222514"],"corresponding_institution_ids":["https://openalex.org/I150729083"],"apc_list":{"value":900,"currency":"USD","value_usd":900},"apc_paid":{"value":900,"currency":"USD","value_usd":900},"fwci":0.4031,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.6103603,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"2012","issue":null,"first_page":"1","last_page":"19"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9979000091552734,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9979000091552734,"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":0.9966999888420105,"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/T10519","display_name":"Advanced Proteomics Techniques and Applications","score":0.9944999814033508,"subfield":{"id":"https://openalex.org/subfields/1607","display_name":"Spectroscopy"},"field":{"id":"https://openalex.org/fields/16","display_name":"Chemistry"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8259120583534241},{"id":"https://openalex.org/keywords/viterbi-algorithm","display_name":"Viterbi algorithm","score":0.778846800327301},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.6905344128608704},{"id":"https://openalex.org/keywords/dynamic-programming","display_name":"Dynamic programming","score":0.6334257125854492},{"id":"https://openalex.org/keywords/hardware-acceleration","display_name":"Hardware acceleration","score":0.5875107645988464},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.5306084752082825},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5281274914741516},{"id":"https://openalex.org/keywords/acceleration","display_name":"Acceleration","score":0.49966955184936523},{"id":"https://openalex.org/keywords/divergence","display_name":"Divergence (linguistics)","score":0.4839211106300354},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.4691808521747589},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.436504989862442},{"id":"https://openalex.org/keywords/focus","display_name":"Focus (optics)","score":0.42237526178359985},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.39147183299064636},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.3323768675327301},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.28713297843933105},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1937345266342163}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8259120583534241},{"id":"https://openalex.org/C60582962","wikidata":"https://www.wikidata.org/wiki/Q83886","display_name":"Viterbi algorithm","level":3,"score":0.778846800327301},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.6905344128608704},{"id":"https://openalex.org/C37404715","wikidata":"https://www.wikidata.org/wiki/Q380679","display_name":"Dynamic programming","level":2,"score":0.6334257125854492},{"id":"https://openalex.org/C13164978","wikidata":"https://www.wikidata.org/wiki/Q600158","display_name":"Hardware acceleration","level":3,"score":0.5875107645988464},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.5306084752082825},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5281274914741516},{"id":"https://openalex.org/C117896860","wikidata":"https://www.wikidata.org/wiki/Q11376","display_name":"Acceleration","level":2,"score":0.49966955184936523},{"id":"https://openalex.org/C207390915","wikidata":"https://www.wikidata.org/wiki/Q1230525","display_name":"Divergence (linguistics)","level":2,"score":0.4839211106300354},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.4691808521747589},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.436504989862442},{"id":"https://openalex.org/C192209626","wikidata":"https://www.wikidata.org/wiki/Q190909","display_name":"Focus (optics)","level":2,"score":0.42237526178359985},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.39147183299064636},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.3323768675327301},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.28713297843933105},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1937345266342163},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.0},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"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/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","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":5,"locations":[{"id":"doi:10.1155/2012/201378","is_oa":true,"landing_page_url":"http://doi.org/10.1155/2012/201378","pdf_url":"https://downloads.hindawi.com/journals/ijrc/2012/201378.pdf","source":{"id":"https://openalex.org/S194867674","display_name":"International Journal of Reconfigurable Computing","issn_l":"1687-7195","issn":["1687-7195","1687-7209"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Reconfigurable Computing","raw_type":"journal-article"},{"id":"pmh:oai:americanae.aecid.es:1830526","is_oa":true,"landing_page_url":"http://americanae.aecid.es/americanae/es/registros/registro.do?tipoRegistro=MTD&idBib=1830526","pdf_url":null,"source":{"id":"https://openalex.org/S4306400786","display_name":"Americanae (AECID Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"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":"reponame:Reposit\u00f3rio Institucional da UnB","raw_type":"info:eu-repo/semantics/publishedVersion"},{"id":"pmh:oai:doaj.org/article:f72b6b41eef94064b13400ee184644ec","is_oa":true,"landing_page_url":"https://doaj.org/article/f72b6b41eef94064b13400ee184644ec","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"International Journal of Reconfigurable Computing, Vol 2012 (2012)","raw_type":"article"},{"id":"pmh:oai:hindawi.com:10.1155/2012/201378","is_oa":true,"landing_page_url":"https://doi.org/10.1155/2012/201378","pdf_url":null,"source":{"id":"https://openalex.org/S4306400340","display_name":"Hindawi Journal of Chemistry (Hindawi)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210126990","host_organization_name":"Hindawi (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210126990"],"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":"","raw_type":"Research Article"},{"id":"pmh:oai:repositorio.unb.br:10482/12256","is_oa":true,"landing_page_url":"http://repositorio.unb.br/handle/10482/12256","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"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":"reponame:Reposit\u00f3rio Institucional da UnB","raw_type":"info:eu-repo/semantics/publishedVersion"}],"best_oa_location":{"id":"doi:10.1155/2012/201378","is_oa":true,"landing_page_url":"http://doi.org/10.1155/2012/201378","pdf_url":"https://downloads.hindawi.com/journals/ijrc/2012/201378.pdf","source":{"id":"https://openalex.org/S194867674","display_name":"International Journal of Reconfigurable Computing","issn_l":"1687-7195","issn":["1687-7195","1687-7209"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310319869","host_organization_name":"Hindawi Publishing Corporation","host_organization_lineage":["https://openalex.org/P4310319869"],"host_organization_lineage_names":["Hindawi Publishing Corporation"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Reconfigurable Computing","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321091","display_name":"Coordena\u00e7\u00e3o de Aperfei\u00e7oamento de Pessoal de N\u00edvel Superior","ror":"https://ror.org/00x0ma614"},{"id":"https://openalex.org/F4320322025","display_name":"Conselho Nacional de Desenvolvimento Cient\u00edfico e Tecnol\u00f3gico","ror":"https://ror.org/03swz6y49"},{"id":"https://openalex.org/F4320322904","display_name":"Financiadora de Estudos e Projetos","ror":"https://ror.org/030w99567"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1985379913.pdf","grobid_xml":"https://content.openalex.org/works/W1985379913.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W1598336441","https://openalex.org/W1964629970","https://openalex.org/W1990061958","https://openalex.org/W1997868137","https://openalex.org/W2007362861","https://openalex.org/W2009570821","https://openalex.org/W2055043387","https://openalex.org/W2058797440","https://openalex.org/W2059848742","https://openalex.org/W2060171832","https://openalex.org/W2101275817","https://openalex.org/W2120345843","https://openalex.org/W2125838338","https://openalex.org/W2127053227","https://openalex.org/W2136874833","https://openalex.org/W2150427812","https://openalex.org/W2161062388"],"related_works":["https://openalex.org/W2136652457","https://openalex.org/W2169849734","https://openalex.org/W2116722627","https://openalex.org/W2129150969","https://openalex.org/W2236912844","https://openalex.org/W1975869217","https://openalex.org/W2401728283","https://openalex.org/W2383829109","https://openalex.org/W2379938888","https://openalex.org/W2386035178"],"abstract_inverted_index":{"The":[0,125],"Viterbi":[1,92],"algorithm":[2,93],"is":[3,111],"one":[4],"of":[5,24,34,98,104,106,116],"the":[6,25,28,32,44,73,80,91,96,102,107,138,142,146,153],"most":[7],"used":[8],"dynamic":[9,108],"programming":[10,109],"algorithms":[11],"for":[12,90],"protein":[13],"comparison":[14,45],"and":[15,58],"identification,":[16],"based":[17],"on":[18,31],"hidden":[19],"markov":[20],"Models":[21],"(HMMs).":[22],"Most":[23],"works":[26],"in":[27,43,100,130],"literature":[29],"focus":[30],"implementation":[33],"hardware":[35,88,143],"accelerators":[36],"that":[37],"act":[38],"as":[39],"a":[40,54,87],"prefilter":[41],"stage":[42,48,149],"process.":[46],"This":[47],"discards":[49],"poorly":[50],"aligned":[51],"sequences":[52,60],"with":[53,61],"low":[55],"similarity":[56,63],"score":[57],"forwards":[59],"good":[62],"scores":[64],"to":[65,71,78,118,122,151],"software,":[66],"where":[67],"they":[68],"are":[69],"reprocessed":[70],"generate":[72,152],"sequence":[74],"alignment.":[75,154],"In":[76],"order":[77],"reduce":[79],"software":[81,148],"reprocessing":[82,147],"time,":[83],"this":[84,131],"work":[85,132],"proposes":[86],"accelerator":[89],"which":[94,101],"includes":[95],"concept":[97],"divergence,":[99],"region":[103],"interest":[105],"matrices":[110],"delimited.":[112],"We":[113],"obtained":[114],"gains":[115],"up":[117],"182x":[119],"when":[120],"compared":[121],"unaccelerated":[123],"software.":[124],"performance":[126],"measurement":[127],"methodology":[128],"adopted":[129],"takes":[133],"into":[134],"account":[135],"not":[136],"only":[137],"acceleration":[139],"achieved":[140],"by":[141],"but":[144],"also":[145],"required":[150]},"counts_by_year":[{"year":2014,"cited_by_count":1},{"year":2013,"cited_by_count":2}],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2025-10-10T00:00:00"}
