{"id":"https://openalex.org/W2164824418","doi":"https://doi.org/10.1109/date.2011.5763024","title":"Parallel accelerators for GlimmerHMM bioinformatics algorithm","display_name":"Parallel accelerators for GlimmerHMM bioinformatics algorithm","publication_year":2011,"publication_date":"2011-03-01","ids":{"openalex":"https://openalex.org/W2164824418","doi":"https://doi.org/10.1109/date.2011.5763024","mag":"2164824418"},"language":"en","primary_location":{"id":"doi:10.1109/date.2011.5763024","is_oa":false,"landing_page_url":"https://doi.org/10.1109/date.2011.5763024","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2011 Design, Automation &amp; Test in Europe","raw_type":"proceedings-article"},"type":"article","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/A5010329398","display_name":"N Chrysanthou","orcid":null},"institutions":[{"id":"https://openalex.org/I55741626","display_name":"Technical University of Crete","ror":"https://ror.org/03f8bz564","country_code":"GR","type":"education","lineage":["https://openalex.org/I55741626"]}],"countries":["GR"],"is_corresponding":true,"raw_author_name":"N Chrysanthou","raw_affiliation_strings":["Microprocessor and Hardware Laboratory, Department of Electronic and Computer Engineering, Technical University of Crete, Chania, Greece"],"affiliations":[{"raw_affiliation_string":"Microprocessor and Hardware Laboratory, Department of Electronic and Computer Engineering, Technical University of Crete, Chania, Greece","institution_ids":["https://openalex.org/I55741626"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004562735","display_name":"Grigorios G. Chrysos","orcid":"https://orcid.org/0000-0002-0650-1856"},"institutions":[{"id":"https://openalex.org/I55741626","display_name":"Technical University of Crete","ror":"https://ror.org/03f8bz564","country_code":"GR","type":"education","lineage":["https://openalex.org/I55741626"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"G Chrysos","raw_affiliation_strings":["Microprocessor and Hardware Laboratory, Department of Electronic and Computer Engineering, Technical University of Crete, Chania, Greece"],"affiliations":[{"raw_affiliation_string":"Microprocessor and Hardware Laboratory, Department of Electronic and Computer Engineering, Technical University of Crete, Chania, Greece","institution_ids":["https://openalex.org/I55741626"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113700477","display_name":"Euripides Sotiriades","orcid":null},"institutions":[{"id":"https://openalex.org/I55741626","display_name":"Technical University of Crete","ror":"https://ror.org/03f8bz564","country_code":"GR","type":"education","lineage":["https://openalex.org/I55741626"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"E Sotiriades","raw_affiliation_strings":["Microprocessor and Hardware Laboratory, Department of Electronic and Computer Engineering, Technical University of Crete, Chania, Greece"],"affiliations":[{"raw_affiliation_string":"Microprocessor and Hardware Laboratory, Department of Electronic and Computer Engineering, Technical University of Crete, Chania, Greece","institution_ids":["https://openalex.org/I55741626"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5032739499","display_name":"Ioannis Papaefstathiou","orcid":"https://orcid.org/0000-0001-6386-5616"},"institutions":[{"id":"https://openalex.org/I55741626","display_name":"Technical University of Crete","ror":"https://ror.org/03f8bz564","country_code":"GR","type":"education","lineage":["https://openalex.org/I55741626"]}],"countries":["GR"],"is_corresponding":false,"raw_author_name":"I Papaefstathiou","raw_affiliation_strings":["Microprocessor and Hardware Laboratory, Department of Electronic and Computer Engineering, Technical University of Crete, Chania, Greece"],"affiliations":[{"raw_affiliation_string":"Microprocessor and Hardware Laboratory, Department of Electronic and Computer Engineering, Technical University of Crete, Chania, Greece","institution_ids":["https://openalex.org/I55741626"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5010329398"],"corresponding_institution_ids":["https://openalex.org/I55741626"],"apc_list":null,"apc_paid":null,"fwci":0.2606,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.59036597,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"48","issue":null,"first_page":"1","last_page":"6"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.998199999332428,"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":0.998199999332428,"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/T11975","display_name":"Evolutionary Algorithms and Applications","score":0.9979000091552734,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8042492270469666},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.7225490212440491},{"id":"https://openalex.org/keywords/field-programmable-gate-array","display_name":"Field-programmable gate array","score":0.6825553178787231},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.5640572309494019},{"id":"https://openalex.org/keywords/parallelism","display_name":"Parallelism (grammar)","score":0.5217143893241882},{"id":"https://openalex.org/keywords/cuda","display_name":"CUDA","score":0.48730456829071045},{"id":"https://openalex.org/keywords/graphics-processing-unit","display_name":"Graphics processing unit","score":0.4590654671192169},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.40744876861572266},{"id":"https://openalex.org/keywords/embedded-system","display_name":"Embedded system","score":0.1714259386062622}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8042492270469666},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.7225490212440491},{"id":"https://openalex.org/C42935608","wikidata":"https://www.wikidata.org/wiki/Q190411","display_name":"Field-programmable gate array","level":2,"score":0.6825553178787231},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.5640572309494019},{"id":"https://openalex.org/C2781172179","wikidata":"https://www.wikidata.org/wiki/Q853109","display_name":"Parallelism (grammar)","level":2,"score":0.5217143893241882},{"id":"https://openalex.org/C2778119891","wikidata":"https://www.wikidata.org/wiki/Q477690","display_name":"CUDA","level":2,"score":0.48730456829071045},{"id":"https://openalex.org/C2779851693","wikidata":"https://www.wikidata.org/wiki/Q183484","display_name":"Graphics processing unit","level":2,"score":0.4590654671192169},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.40744876861572266},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.1714259386062622}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/date.2011.5763024","is_oa":false,"landing_page_url":"https://doi.org/10.1109/date.2011.5763024","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2011 Design, Automation &amp; Test in Europe","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":16,"referenced_works":["https://openalex.org/W1598336441","https://openalex.org/W1964629970","https://openalex.org/W2058797440","https://openalex.org/W2074522660","https://openalex.org/W2077364005","https://openalex.org/W2092670169","https://openalex.org/W2092904290","https://openalex.org/W2121840477","https://openalex.org/W2127053227","https://openalex.org/W2133253129","https://openalex.org/W2135975985","https://openalex.org/W2149467186","https://openalex.org/W2154240181","https://openalex.org/W2157909358","https://openalex.org/W2309947189","https://openalex.org/W6665237582"],"related_works":["https://openalex.org/W2983282793","https://openalex.org/W2020279179","https://openalex.org/W2503137108","https://openalex.org/W2119534391","https://openalex.org/W1966576946","https://openalex.org/W2023770367","https://openalex.org/W2062253548","https://openalex.org/W2393490604","https://openalex.org/W2393707426","https://openalex.org/W2146871484"],"abstract_inverted_index":{"In":[0],"the":[1,10,27,30,36,40,52,65,77,91,98,118,124,128,132,141,145,155,163],"last":[2],"decades":[3],"there":[4],"is":[5,26,61,83,121,134,150],"an":[6],"exponential":[7],"growth":[8],"in":[9,24],"amount":[11],"of":[12,29,39,64,81,109,117,131],"genomic":[13,33],"data":[14],"that":[15,50,93],"need":[16],"to":[17,152,160],"be":[18],"analyzed.":[19],"A":[20],"very":[21],"important":[22],"problem":[23,55],"biology":[25,48],"extraction":[28],"biologically":[31],"functional":[32],"DNA":[34],"from":[35],"actual":[37],"genome":[38],"organisms.":[41],"There":[42],"have":[43],"been":[44],"proposed":[45],"many":[46],"computational":[47],"algorithms":[49],"solve":[51],"gene":[53],"finding":[54],"which":[56],"utilize":[57],"various":[58],"approaches;":[59],"GlimmerHMM":[60,78],"considered":[62],"one":[63,100,125],"most":[66,146],"efficient":[67],"such":[68],"algorithms.":[69],"This":[70],"paper":[71],"presents":[72],"two":[73],"different":[74],"accelerators":[75],"for":[76,144,154,162],"algorithm.":[79],"One":[80],"them":[82],"implemented":[84,119],"on":[85,136],"a":[86,102,110,137],"modern":[87],"FPGA":[88],"platform":[89],"exploiting":[90],"parallelism":[92],"reconfigurable":[94],"logic":[95],"offers":[96],"and":[97,158],"other":[99],"utilizes":[101],"GPU":[103],"(Graphic":[104],"Processing":[105],"Unit)":[106],"taking":[107],"advantage":[108],"highly":[111],"multithreaded":[112],"operational":[113],"environment.":[114],"The":[115],"performance":[116],"systems":[120],"compared":[122],"against":[123],"achieved":[126],"when":[127],"official":[129],"distribution":[130],"algorithm":[133],"executed":[135],"high-end":[138],"multi-core":[139],"server;":[140],"speedup":[142],"initiated,":[143],"compute":[147],"intensive":[148],"part,":[149],"up":[151,159],"200\u00d7":[153],"FPGA-based":[156],"system":[157],"34\u00d7":[161],"GPU-based":[164],"system.":[165]},"counts_by_year":[{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
