{"id":"https://openalex.org/W3086876403","doi":"https://doi.org/10.1109/hpcs48598.2019.9188222","title":"DP2: A Highly Parallel Range Join for Genome Analysis on Distributed Computing Platform","display_name":"DP2: A Highly Parallel Range Join for Genome Analysis on Distributed Computing Platform","publication_year":2019,"publication_date":"2019-07-01","ids":{"openalex":"https://openalex.org/W3086876403","doi":"https://doi.org/10.1109/hpcs48598.2019.9188222","mag":"3086876403"},"language":"en","primary_location":{"id":"doi:10.1109/hpcs48598.2019.9188222","is_oa":false,"landing_page_url":"https://doi.org/10.1109/hpcs48598.2019.9188222","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 International Conference on High Performance Computing & Simulation (HPCS)","raw_type":"proceedings-article"},"type":"conference-paper","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/A5003896409","display_name":"Aman Sinha","orcid":"https://orcid.org/0000-0002-5258-498X"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Aman Sinha","raw_affiliation_strings":["Parallel Computing System Lab, National Chiao Tung University, Hsinchu City, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Parallel Computing System Lab, National Chiao Tung University, Hsinchu City, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013913342","display_name":"Bo\u2010Cheng Lai","orcid":"https://orcid.org/0000-0002-9729-5196"},"institutions":[{"id":"https://openalex.org/I148366613","display_name":"National Yang Ming Chiao Tung University","ror":"https://ror.org/00se2k293","country_code":"TW","type":"education","lineage":["https://openalex.org/I148366613"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Bo-Cheng Lai","raw_affiliation_strings":["Parallel Computing System Lab, National Chiao Tung University, Hsinchu City, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Parallel Computing System Lab, National Chiao Tung University, Hsinchu City, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":["https://openalex.org/I148366613"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.23882503,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"358","last_page":"362"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9961000084877014,"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":0.9961000084877014,"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":0.9925000071525574,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9915000200271606,"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":0.8251640200614929},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.7996339797973633},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.6769545078277588},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.5707523822784424},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.49967026710510254},{"id":"https://openalex.org/keywords/leverage","display_name":"Leverage (statistics)","score":0.4690105617046356},{"id":"https://openalex.org/keywords/partition","display_name":"Partition (number theory)","score":0.4596535563468933},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.4461207091808319},{"id":"https://openalex.org/keywords/exploit","display_name":"Exploit","score":0.4308745265007019},{"id":"https://openalex.org/keywords/tree","display_name":"Tree (set theory)","score":0.42562761902809143},{"id":"https://openalex.org/keywords/binary-tree","display_name":"Binary tree","score":0.4110383987426758},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.359687864780426},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.14419826865196228}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8251640200614929},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.7996339797973633},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.6769545078277588},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.5707523822784424},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.49967026710510254},{"id":"https://openalex.org/C153083717","wikidata":"https://www.wikidata.org/wiki/Q6535263","display_name":"Leverage (statistics)","level":2,"score":0.4690105617046356},{"id":"https://openalex.org/C42812","wikidata":"https://www.wikidata.org/wiki/Q1082910","display_name":"Partition (number theory)","level":2,"score":0.4596535563468933},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.4461207091808319},{"id":"https://openalex.org/C165696696","wikidata":"https://www.wikidata.org/wiki/Q11287","display_name":"Exploit","level":2,"score":0.4308745265007019},{"id":"https://openalex.org/C113174947","wikidata":"https://www.wikidata.org/wiki/Q2859736","display_name":"Tree (set theory)","level":2,"score":0.42562761902809143},{"id":"https://openalex.org/C197855036","wikidata":"https://www.wikidata.org/wiki/Q380172","display_name":"Binary tree","level":2,"score":0.4110383987426758},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.359687864780426},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.14419826865196228},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.0},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.0},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/hpcs48598.2019.9188222","is_oa":false,"landing_page_url":"https://doi.org/10.1109/hpcs48598.2019.9188222","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2019 International Conference on High Performance Computing & Simulation (HPCS)","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":11,"referenced_works":["https://openalex.org/W26797728","https://openalex.org/W1967239133","https://openalex.org/W1989017925","https://openalex.org/W2021557775","https://openalex.org/W2102619694","https://openalex.org/W2108234281","https://openalex.org/W2121906867","https://openalex.org/W2174355534","https://openalex.org/W2283262782","https://openalex.org/W2542459869","https://openalex.org/W2962825295"],"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/W2013643406","https://openalex.org/W2027972911","https://openalex.org/W2157978810","https://openalex.org/W2597809628","https://openalex.org/W3046370962"],"abstract_inverted_index":{"Rapid":[0],"growth":[1],"of":[2,6,34,55,152,166],"the":[3,26,32,49,71,78,131,156],"sheer":[4],"amount":[5],"genome":[7,17,56],"data":[8],"and":[9,22,114,121,148,168],"intense":[10],"computation":[11,81,125],"become":[12],"great":[13],"challenges":[14],"for":[15,155],"downstream":[16],"analytics.":[18],"Efficient":[19,124],"parallel":[20,80],"processing":[21],"distributed":[23,72,132],"computing":[24,133],"are":[25],"two":[27,52],"effective":[28],"schemes":[29],"to":[30,76,107,129,178],"address":[31],"analysis":[33,106],"big":[35],"data.":[36],"Range":[37],"join":[38],"is":[39,127],"a":[40,95,169],"widely":[41,60],"used,":[42],"effective,":[43],"yet":[44],"time-consuming":[45],"operation":[46,159],"that":[47,102],"finds":[48],"overlap":[50],"between":[51],"different":[53],"sets":[54],"features.":[57],"The":[58,136],"current":[59,144],"adopted":[61],"BEDTools":[62,145],"[6]":[63,146],"pipeline":[64],"adopts":[65],"single-node":[66],"binary":[67],"tree":[68,164],"approach,":[69],"while":[70],"GenAp":[73,167],"scheme":[74],"fails":[75],"exploit":[77],"massive":[79],"on":[82,134],"modern":[83],"throughput":[84],"processors,":[85],"such":[86],"as":[87],"GPU":[88],"(Graphic":[89],"Processing":[90],"Unit).":[91],"This":[92],"paper":[93],"proposes":[94],"novel":[96,104],"Distributed":[97],"Parallel":[98],"P-ary":[99,105],"search":[100],"(DP2)":[101],"applies":[103],"enable":[108],"high":[109],"parallelism":[110],"at":[111,119],"algorithmic":[112],"level,":[113],"extensively":[115],"utilize":[116],"multiple":[117],"GPUs":[118],"system":[120],"architecture":[122],"level.":[123],"allocation":[126],"implemented":[128],"leverage":[130],"clusters.":[135],"proposed":[137],"framework":[138],"can":[139],"be":[140],"well":[141],"integrated":[142],"with":[143,162],"pipeline,":[147],"achieves":[149],"an":[150],"average":[151],"25\u00d7":[153],"speedup":[154,175],"actual":[157],"range-join":[158],"when":[160],"compared":[161],"Binary":[163],"approach":[165],"13\u00d7":[170],"end-to-end":[171],"(total":[172],"execution":[173],"time)":[174],"in":[176],"comparison":[177],"ADAM.":[179]},"counts_by_year":[],"updated_date":"2026-07-29T14:22:42.915294","created_date":"2025-10-10T00:00:00"}