{"id":"https://openalex.org/W2962955646","doi":"https://doi.org/10.1109/bmei.2014.7002858","title":"Solving the longest overlap region problem for noncoding DNA sequences with GPU","display_name":"Solving the longest overlap region problem for noncoding DNA sequences with GPU","publication_year":2014,"publication_date":"2014-10-01","ids":{"openalex":"https://openalex.org/W2962955646","doi":"https://doi.org/10.1109/bmei.2014.7002858","mag":"2962955646"},"language":"en","primary_location":{"id":"doi:10.1109/bmei.2014.7002858","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bmei.2014.7002858","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2014 7th International Conference on Biomedical Engineering and Informatics","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/A5068868822","display_name":"Yukun Zhong","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"YuKun Zhong","raw_affiliation_strings":["Computer Science and Engineering Department, Sichuan University, Penshan, China"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, Sichuan University, Penshan, China","institution_ids":["https://openalex.org/I24185976"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013330606","display_name":"JianBiao Lin","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"JianBiao Lin","raw_affiliation_strings":["Computer Science and Engineering Department, Sichuan University, Penshan, China"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, Sichuan University, Penshan, China","institution_ids":["https://openalex.org/I24185976"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003263538","display_name":"BaoQiu Wang","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"BaoQiu Wang","raw_affiliation_strings":["Computer Science and Engineering Department, Sichuan University, Penshan, China"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, Sichuan University, Penshan, China","institution_ids":["https://openalex.org/I24185976"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5056396551","display_name":"Tao Chen","orcid":"https://orcid.org/0000-0002-2283-7413"},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Chen Tao","raw_affiliation_strings":["Computer Science and Engineering Department, Sichuan University, Penshan, China"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, Sichuan University, Penshan, China","institution_ids":["https://openalex.org/I24185976"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031747017","display_name":"Che Nian","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Che Nian","raw_affiliation_strings":["Computer Science and Engineering Department, Sichuan University, Penshan, China"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, Sichuan University, Penshan, China","institution_ids":["https://openalex.org/I24185976"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100904693","display_name":"Xie Wen","orcid":null},"institutions":[{"id":"https://openalex.org/I24185976","display_name":"Sichuan University","ror":"https://ror.org/011ashp19","country_code":"CN","type":"education","lineage":["https://openalex.org/I24185976"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xie Wen","raw_affiliation_strings":["Computer Science and Engineering Department, Sichuan University, Penshan, China"],"affiliations":[{"raw_affiliation_string":"Computer Science and Engineering Department, Sichuan University, Penshan, China","institution_ids":["https://openalex.org/I24185976"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5068868822"],"corresponding_institution_ids":["https://openalex.org/I24185976"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.29938724,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"1","issue":null,"first_page":"671","last_page":"676"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9998999834060669,"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"}},"topics":[{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9998999834060669,"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/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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.995199978351593,"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/cuda","display_name":"CUDA","score":0.890094518661499},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.8040258884429932},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.755574107170105},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.7094136476516724},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.5659716725349426},{"id":"https://openalex.org/keywords/coding","display_name":"Coding (social sciences)","score":0.5046983957290649},{"id":"https://openalex.org/keywords/synchronization","display_name":"Synchronization (alternating current)","score":0.4407656788825989},{"id":"https://openalex.org/keywords/general-purpose-computing-on-graphics-processing-units","display_name":"General-purpose computing on graphics processing units","score":0.415071576833725},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3215467631816864},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.27177590131759644},{"id":"https://openalex.org/keywords/graphics","display_name":"Graphics","score":0.11500176787376404},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.1065395176410675},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.10437056422233582}],"concepts":[{"id":"https://openalex.org/C2778119891","wikidata":"https://www.wikidata.org/wiki/Q477690","display_name":"CUDA","level":2,"score":0.890094518661499},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8040258884429932},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.755574107170105},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.7094136476516724},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.5659716725349426},{"id":"https://openalex.org/C179518139","wikidata":"https://www.wikidata.org/wiki/Q5140297","display_name":"Coding (social sciences)","level":2,"score":0.5046983957290649},{"id":"https://openalex.org/C2778562939","wikidata":"https://www.wikidata.org/wiki/Q1298791","display_name":"Synchronization (alternating current)","level":3,"score":0.4407656788825989},{"id":"https://openalex.org/C50630238","wikidata":"https://www.wikidata.org/wiki/Q971505","display_name":"General-purpose computing on graphics processing units","level":3,"score":0.415071576833725},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3215467631816864},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.27177590131759644},{"id":"https://openalex.org/C21442007","wikidata":"https://www.wikidata.org/wiki/Q1027879","display_name":"Graphics","level":2,"score":0.11500176787376404},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.1065395176410675},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.10437056422233582},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.0},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.0},{"id":"https://openalex.org/C127162648","wikidata":"https://www.wikidata.org/wiki/Q16858953","display_name":"Channel (broadcasting)","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bmei.2014.7002858","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bmei.2014.7002858","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2014 7th International Conference on Biomedical Engineering and Informatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":20,"referenced_works":["https://openalex.org/W938539187","https://openalex.org/W1489909987","https://openalex.org/W1675130169","https://openalex.org/W1966673552","https://openalex.org/W1990061958","https://openalex.org/W1992851788","https://openalex.org/W2067974452","https://openalex.org/W2107079154","https://openalex.org/W2118558147","https://openalex.org/W2125109709","https://openalex.org/W2155119349","https://openalex.org/W2167406488","https://openalex.org/W2168976537","https://openalex.org/W2403986816","https://openalex.org/W2560137734","https://openalex.org/W4240180700","https://openalex.org/W6648639734","https://openalex.org/W6678579874","https://openalex.org/W6713275365","https://openalex.org/W6730551790"],"related_works":["https://openalex.org/W2983282793","https://openalex.org/W1963859303","https://openalex.org/W2364044215","https://openalex.org/W2389600408","https://openalex.org/W240129890","https://openalex.org/W3048701459","https://openalex.org/W2149078538","https://openalex.org/W2080146221","https://openalex.org/W2370314112","https://openalex.org/W1912958759"],"abstract_inverted_index":{"Early":[0],"hardware":[1],"limitations":[2],"of":[3,6,40,67,73,90,101],"GPU":[4,91],"(lack":[5],"synchronization":[7],"primitives":[8],"and":[9,26,124],"limited":[10],"memory":[11],"caching":[12],"mechanisms)":[13],"can":[14],"make":[15],"GPU-based":[16],"computation":[17],"inefficient.":[18],"Now":[19],"Bio-technologies":[20],"bring":[21],"more":[22,94],"chances":[23],"to":[24,34,58,80,113],"Bioinformatics":[25],"Biological":[27],"Engineering.":[28],"Our":[29],"paper":[30],"introduces":[31],"a":[32,110],"way":[33],"solve":[35],"the":[36,46,65,68,86,114],"longest":[37,69,119],"overlap":[38,70,120],"region":[39,71,121],"non-coding":[41],"DNA":[42,75],"sequences":[43],"on":[44],"using":[45],"Compute":[47],"Unified":[48],"Device":[49],"Architecture":[50],"(CUDA)":[51],"platform":[52],"Intel(R)":[53],"Core(TM)":[54],"i3-3110m":[55],"quad-core.":[56],"Compared":[57],"standard":[59],"CPU":[60,102],"implementation,":[61],"CUDA":[62],"performance":[63,92],"proves":[64],"method":[66,108],"recognition":[72,122],"noncoding":[74],"is":[76,93],"an":[77],"efficient":[78],"approach":[79],"high-performance":[81],"bioinformatics":[82,115],"applications.":[83],"Studies":[84],"show":[85],"fact":[87],"that":[88,100],"efficiency":[89],"than":[95,99],"20":[96],"times":[97],"speedup":[98],"serial":[103],"implementation.":[104],"We":[105],"believe":[106],"our":[107],"gives":[109],"cost-efficient":[111],"solution":[112],"community":[116],"for":[117],"solving":[118],"problem":[123],"other":[125],"related":[126],"fields.":[127]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
