{"id":"https://openalex.org/W2010137018","doi":"https://doi.org/10.4018/jghpc.2013070105","title":"Multiple Sequence Alignments with Regular Expression Constraints on a Cloud Service System","display_name":"Multiple Sequence Alignments with Regular Expression Constraints on a Cloud Service System","publication_year":2013,"publication_date":"2013-07-01","ids":{"openalex":"https://openalex.org/W2010137018","doi":"https://doi.org/10.4018/jghpc.2013070105","mag":"2010137018"},"language":"en","primary_location":{"id":"doi:10.4018/jghpc.2013070105","is_oa":false,"landing_page_url":"https://doi.org/10.4018/jghpc.2013070105","pdf_url":null,"source":{"id":"https://openalex.org/S43307632","display_name":"International Journal of Grid and High Performance Computing","issn_l":"1938-0259","issn":["1938-0259","1938-0267"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320424","host_organization_name":"IGI Global","host_organization_lineage":["https://openalex.org/P4310320424"],"host_organization_lineage_names":["IGI Global"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Grid and High Performance Computing","raw_type":"journal-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/A5086495456","display_name":"Yu\u2010Shiang Lin","orcid":"https://orcid.org/0000-0002-0625-0364"},"institutions":[{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW"],"is_corresponding":true,"raw_author_name":"Yu-Shiang Lin","raw_affiliation_strings":["National Tsing Hua University, Hsinchu, Taiwan"],"affiliations":[{"raw_affiliation_string":"National Tsing Hua University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I25846049"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101479832","display_name":"Chun\u2010Yuan Lin","orcid":"https://orcid.org/0000-0003-1796-6189"},"institutions":[{"id":"https://openalex.org/I173093425","display_name":"Chang Gung University","ror":"https://ror.org/00d80zx46","country_code":"TW","type":"education","lineage":["https://openalex.org/I173093425"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Chun-Yuan Lin","raw_affiliation_strings":["Chang Gung University, Tao-Yuan, Taiwan","Chang Gung University, Tao-Yuan, Taiwan#TAB#"],"affiliations":[{"raw_affiliation_string":"Chang Gung University, Tao-Yuan, Taiwan","institution_ids":["https://openalex.org/I173093425"]},{"raw_affiliation_string":"Chang Gung University, Tao-Yuan, Taiwan#TAB#","institution_ids":["https://openalex.org/I173093425"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5054624090","display_name":"Hsiao-Chieh Chi","orcid":null},"institutions":[{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Hsiao-Chieh Chi","raw_affiliation_strings":["National Tsing Hua University, Hsinchu, Taiwan"],"affiliations":[{"raw_affiliation_string":"National Tsing Hua University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I25846049"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5043627040","display_name":"Yeh\u2010Ching Chung","orcid":"https://orcid.org/0000-0002-8704-9821"},"institutions":[{"id":"https://openalex.org/I25846049","display_name":"National Tsing Hua University","ror":"https://ror.org/00zdnkx70","country_code":"TW","type":"education","lineage":["https://openalex.org/I25846049"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Yeh-Ching Chung","raw_affiliation_strings":["National Tsing Hua University, Hsinchu, Taiwan"],"affiliations":[{"raw_affiliation_string":"National Tsing Hua University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I25846049"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5086495456"],"corresponding_institution_ids":["https://openalex.org/I25846049"],"apc_list":null,"apc_paid":null,"fwci":0.14178895,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.5780786,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"5","issue":"3","first_page":"55","last_page":"64"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9922999739646912,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9890000224113464,"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":0.8621701002120972},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.7833672761917114},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.695000171661377},{"id":"https://openalex.org/keywords/cuda","display_name":"CUDA","score":0.6796994209289551},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6250043511390686},{"id":"https://openalex.org/keywords/graphics","display_name":"Graphics","score":0.5848503708839417},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.514298141002655},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.49511638283729553},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.4936619699001312},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.45742806792259216},{"id":"https://openalex.org/keywords/server","display_name":"Server","score":0.44616782665252686},{"id":"https://openalex.org/keywords/host","display_name":"Host (biology)","score":0.4269412159919739},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.3918781280517578},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.2142256498336792},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.17983880639076233},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.08812624216079712}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8621701002120972},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.7833672761917114},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.695000171661377},{"id":"https://openalex.org/C2778119891","wikidata":"https://www.wikidata.org/wiki/Q477690","display_name":"CUDA","level":2,"score":0.6796994209289551},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6250043511390686},{"id":"https://openalex.org/C21442007","wikidata":"https://www.wikidata.org/wiki/Q1027879","display_name":"Graphics","level":2,"score":0.5848503708839417},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.514298141002655},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.49511638283729553},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.4936619699001312},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.45742806792259216},{"id":"https://openalex.org/C93996380","wikidata":"https://www.wikidata.org/wiki/Q44127","display_name":"Server","level":2,"score":0.44616782665252686},{"id":"https://openalex.org/C126831891","wikidata":"https://www.wikidata.org/wiki/Q221673","display_name":"Host (biology)","level":2,"score":0.4269412159919739},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.3918781280517578},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.2142256498336792},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.17983880639076233},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.08812624216079712},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","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/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.0},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.4018/jghpc.2013070105","is_oa":false,"landing_page_url":"https://doi.org/10.4018/jghpc.2013070105","pdf_url":null,"source":{"id":"https://openalex.org/S43307632","display_name":"International Journal of Grid and High Performance Computing","issn_l":"1938-0259","issn":["1938-0259","1938-0267"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320424","host_organization_name":"IGI Global","host_organization_lineage":["https://openalex.org/P4310320424"],"host_organization_lineage_names":["IGI Global"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"International Journal of Grid and High Performance Computing","raw_type":"journal-article"},{"id":"pmh:oai:RePEc:igg:jghpc0:v:5:y:2013:i:3:p:55-64","is_oa":false,"landing_page_url":"http://services.igi-global.com/resolvedoi/resolve.aspx?doi=10.4018/jghpc.2013070105","pdf_url":null,"source":{"id":"https://openalex.org/S4306401271","display_name":"RePEc: Research Papers in Economics","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I77793887","host_organization_name":"Federal Reserve Bank of St. Louis","host_organization_lineage":["https://openalex.org/I77793887"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320309480","display_name":"Nvidia","ror":"https://ror.org/03jdj4y14"},{"id":"https://openalex.org/F4320321040","display_name":"National Science Council","ror":"https://ror.org/02kv4zf79"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":42,"referenced_works":["https://openalex.org/W88550252","https://openalex.org/W100862783","https://openalex.org/W1531925985","https://openalex.org/W1578673849","https://openalex.org/W1619500442","https://openalex.org/W1767231739","https://openalex.org/W1974063126","https://openalex.org/W1974326986","https://openalex.org/W1977512185","https://openalex.org/W1981089653","https://openalex.org/W1999395788","https://openalex.org/W2011652244","https://openalex.org/W2013733655","https://openalex.org/W2028499920","https://openalex.org/W2071116416","https://openalex.org/W2074231493","https://openalex.org/W2083319603","https://openalex.org/W2087064593","https://openalex.org/W2091380713","https://openalex.org/W2093182230","https://openalex.org/W2094969361","https://openalex.org/W2098129242","https://openalex.org/W2101495290","https://openalex.org/W2104383381","https://openalex.org/W2106882534","https://openalex.org/W2109393352","https://openalex.org/W2109710144","https://openalex.org/W2116508956","https://openalex.org/W2116715773","https://openalex.org/W2118874283","https://openalex.org/W2122482436","https://openalex.org/W2131629857","https://openalex.org/W2132670691","https://openalex.org/W2133540884","https://openalex.org/W2149400549","https://openalex.org/W2165949232","https://openalex.org/W2166621589","https://openalex.org/W2170896626","https://openalex.org/W2610675308","https://openalex.org/W3138798301","https://openalex.org/W4236357501","https://openalex.org/W6679408652"],"related_works":["https://openalex.org/W2058965144","https://openalex.org/W2164382479","https://openalex.org/W2146343568","https://openalex.org/W98480971","https://openalex.org/W2150291671","https://openalex.org/W2027972911","https://openalex.org/W2013643406","https://openalex.org/W2157978810","https://openalex.org/W2597809628","https://openalex.org/W2983282793"],"abstract_inverted_index":{"Multiple":[0],"sequence":[1,13,22,42],"alignments":[2,23],"with":[3,61,72,128,172],"constraints":[4],"are":[5,29,74],"of":[6,19,39,82,97,121],"priority":[7],"concern":[8],"in":[9,48,51,66,156],"computational":[10],"biology.":[11],"Constrained":[12],"alignment":[14,35,43,162],"incorporates":[15],"the":[16,26,34,52,57,62,90,94,124,134,144,161],"domain":[17],"knowledge":[18],"biologists":[20,107],"into":[21],"such":[24],"that":[25,183],"user-specified":[27],"residues/segments":[28],"aligned":[30],"together":[31],"according":[32],"to":[33,108,142,147],"results.":[36,92],"A":[37],"series":[38],"constrained":[40],"multiple":[41],"tools":[44],"have":[45],"been":[46],"developed":[47],"relevant":[49],"literatures":[50],"recent":[53],"decade.":[54],"GPU-REMuSiC":[55,76,98,122,175],"is":[56,103,176,184],"most":[58],"advanced":[59],"method":[60],"regular":[63],"expression":[64],"constraints,":[65],"which":[67],"graphics":[68],"processing":[69],"units":[70],"(GPUs)":[71],"CUDA":[73],"used.":[75],"can":[77,164],"achieve":[78],"a":[79,104,138,148,152,157,168],"speedup":[80],"ratio":[81],"29x":[83],"for":[84,106,123],"overall":[85],"computation":[86],"time":[87,187],"based":[88],"on":[89],"experimental":[91],"However,":[93],"execution":[95],"environment":[96],"must":[99],"be":[100,165],"constructed;":[101],"it":[102],"threshold":[105],"set":[109],"up":[110],"it.":[111],"Therefore,":[112],"this":[113],"work":[114],"presents":[115],"an":[116,180],"intuitive":[117],"friendly":[118],"user":[119,135],"interface":[120,136],"potential":[125],"cloud":[126,170],"server":[127,150,171],"GPUs,":[129],"called":[130],"Cloud":[131,174],"GPU-REMuSiC.":[132],"Implementing":[133],"via":[137],"network":[139],"allows":[140],"us":[141],"transmit":[143],"input":[145],"data":[146],"remote":[149,169],"without":[151,186],"complex":[153],"cumbersome":[154],"setting":[155],"local":[158],"host.":[159],"Finally,":[160],"results":[163],"obtained":[166],"from":[167],"GPUs.":[173],"highly":[177],"promising":[178],"as":[179],"online":[181],"application":[182],"accessible":[185],"or":[188],"location":[189],"constraints.":[190]},"counts_by_year":[{"year":2015,"cited_by_count":1}],"updated_date":"2026-02-09T09:26:11.010843","created_date":"2025-10-10T00:00:00"}
