{"id":"https://openalex.org/W2039079018","doi":"https://doi.org/10.1109/bibm.2014.6999391","title":"Whole cancer genome analysis using an I/O aware job scheduler on high performance computing resource","display_name":"Whole cancer genome analysis using an I/O aware job scheduler on high performance computing resource","publication_year":2014,"publication_date":"2014-11-01","ids":{"openalex":"https://openalex.org/W2039079018","doi":"https://doi.org/10.1109/bibm.2014.6999391","mag":"2039079018"},"language":"en","primary_location":{"id":"doi:10.1109/bibm.2014.6999391","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2014.6999391","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","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/A5069177443","display_name":"Junehawk Lee","orcid":"https://orcid.org/0000-0001-8908-0884"},"institutions":[{"id":"https://openalex.org/I878022262","display_name":"Korea Institute of Science & Technology Information","ror":"https://ror.org/01k4yrm29","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210144908","https://openalex.org/I4387152098","https://openalex.org/I878022262"]}],"countries":["KR"],"is_corresponding":true,"raw_author_name":"Junehawk Lee","raw_affiliation_strings":["National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea","National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea#TAB#"],"affiliations":[{"raw_affiliation_string":"National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea","institution_ids":["https://openalex.org/I878022262"]},{"raw_affiliation_string":"National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea#TAB#","institution_ids":["https://openalex.org/I878022262"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101581131","display_name":"Hyojin Kang","orcid":"https://orcid.org/0000-0002-3403-276X"},"institutions":[{"id":"https://openalex.org/I878022262","display_name":"Korea Institute of Science & Technology Information","ror":"https://ror.org/01k4yrm29","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210144908","https://openalex.org/I4387152098","https://openalex.org/I878022262"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Hyojin Kang","raw_affiliation_strings":["National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea","National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea#TAB#"],"affiliations":[{"raw_affiliation_string":"National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea","institution_ids":["https://openalex.org/I878022262"]},{"raw_affiliation_string":"National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea#TAB#","institution_ids":["https://openalex.org/I878022262"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017516541","display_name":"Seok-Jong Yu","orcid":"https://orcid.org/0000-0002-1631-4034"},"institutions":[{"id":"https://openalex.org/I878022262","display_name":"Korea Institute of Science & Technology Information","ror":"https://ror.org/01k4yrm29","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210144908","https://openalex.org/I4387152098","https://openalex.org/I878022262"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Seokjong Yu","raw_affiliation_strings":["National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea","National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea#TAB#"],"affiliations":[{"raw_affiliation_string":"National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea","institution_ids":["https://openalex.org/I878022262"]},{"raw_affiliation_string":"National Institute of Supercomputing and Networking, Korea Institute of Science and Technology Information, Daejeon, Korea#TAB#","institution_ids":["https://openalex.org/I878022262"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100741253","display_name":"Chul Kim","orcid":"https://orcid.org/0000-0003-4360-6101"},"institutions":[{"id":"https://openalex.org/I4210087584","display_name":"Korea Institute of Oriental Medicine","ror":"https://ror.org/005rpmt10","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210087584","https://openalex.org/I4210144908","https://openalex.org/I4387152098"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Chul Kim","raw_affiliation_strings":["Korea Institute of Oriental Medicine, Daejeon, Korea"],"affiliations":[{"raw_affiliation_string":"Korea Institute of Oriental Medicine, Daejeon, Korea","institution_ids":["https://openalex.org/I4210087584"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089134837","display_name":"Sang-Jun Yea","orcid":null},"institutions":[{"id":"https://openalex.org/I4210087584","display_name":"Korea Institute of Oriental Medicine","ror":"https://ror.org/005rpmt10","country_code":"KR","type":"facility","lineage":["https://openalex.org/I2801339556","https://openalex.org/I4210087584","https://openalex.org/I4210144908","https://openalex.org/I4387152098"]}],"countries":["KR"],"is_corresponding":false,"raw_author_name":"Sang-Jun Yea","raw_affiliation_strings":["Korea Institute of Oriental Medicine, Daejeon, Korea"],"affiliations":[{"raw_affiliation_string":"Korea Institute of Oriental Medicine, Daejeon, Korea","institution_ids":["https://openalex.org/I4210087584"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5069177443"],"corresponding_institution_ids":["https://openalex.org/I878022262"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.12644837,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"10","last_page":"11"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9987000226974487,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9987000226974487,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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/T11181","display_name":"Advanced Data Storage Technologies","score":0.9983000159263611,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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/T11269","display_name":"Algorithms and Data Compression","score":0.9837999939918518,"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":0.7683401107788086},{"id":"https://openalex.org/keywords/bottleneck","display_name":"Bottleneck","score":0.6683908700942993},{"id":"https://openalex.org/keywords/job-scheduler","display_name":"Job scheduler","score":0.6499108672142029},{"id":"https://openalex.org/keywords/supercomputer","display_name":"Supercomputer","score":0.5941868424415588},{"id":"https://openalex.org/keywords/execution-time","display_name":"Execution time","score":0.419999897480011},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.41705769300460815},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.3584907650947571},{"id":"https://openalex.org/keywords/distributed-computing","display_name":"Distributed computing","score":0.3568122982978821},{"id":"https://openalex.org/keywords/cloud-computing","display_name":"Cloud computing","score":0.2936137318611145},{"id":"https://openalex.org/keywords/embedded-system","display_name":"Embedded system","score":0.13953453302383423},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.13217702507972717},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.09016278386116028}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7683401107788086},{"id":"https://openalex.org/C2780513914","wikidata":"https://www.wikidata.org/wiki/Q18210350","display_name":"Bottleneck","level":2,"score":0.6683908700942993},{"id":"https://openalex.org/C111873713","wikidata":"https://www.wikidata.org/wiki/Q1641413","display_name":"Job scheduler","level":3,"score":0.6499108672142029},{"id":"https://openalex.org/C83283714","wikidata":"https://www.wikidata.org/wiki/Q121117","display_name":"Supercomputer","level":2,"score":0.5941868424415588},{"id":"https://openalex.org/C2989134064","wikidata":"https://www.wikidata.org/wiki/Q288510","display_name":"Execution time","level":2,"score":0.419999897480011},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.41705769300460815},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.3584907650947571},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.3568122982978821},{"id":"https://openalex.org/C79974875","wikidata":"https://www.wikidata.org/wiki/Q483639","display_name":"Cloud computing","level":2,"score":0.2936137318611145},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.13953453302383423},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.13217702507972717},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.09016278386116028},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bibm.2014.6999391","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bibm.2014.6999391","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2014 IEEE International Conference on Bioinformatics and Biomedicine (BIBM)","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.47999998927116394,"display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":5,"referenced_works":["https://openalex.org/W2010991736","https://openalex.org/W2041937775","https://openalex.org/W2045807857","https://openalex.org/W2065817684","https://openalex.org/W2121144826"],"related_works":["https://openalex.org/W2595172197","https://openalex.org/W2084856301","https://openalex.org/W2127970246","https://openalex.org/W4319941049","https://openalex.org/W2418418119","https://openalex.org/W2842402481","https://openalex.org/W2098270445","https://openalex.org/W3017351265","https://openalex.org/W4281719965","https://openalex.org/W1511549656"],"abstract_inverted_index":{"Recent":[0],"advances":[1],"in":[2,20,169],"DNA":[3,18],"sequencing":[4],"technology":[5],"have":[6],"enabled":[7],"Next":[8],"Generation":[9],"Sequencing":[10],"(NGS)":[11],"instruments":[12],"to":[13,109,131,143,177,234],"accelerate":[14],"generating":[15],"billions":[16],"of":[17,27,35,39,45,70,84,92,104,148,172,181,187,208],"reads":[19],"a":[21,42,96,124,149,155],"few":[22],"days.":[23],"However,":[24],"the":[25,32,74,81,101,115,144,179],"management":[26],"enormous":[28],"NGS":[29,188],"data":[30,40],"and":[31,48,66,166,174,224],"concurrent":[33,182],"analysis":[34,71,94,116,158,183,228],"these":[36],"vast":[37,68,185],"amount":[38,69,83,186],"requires":[41],"great":[43],"deal":[44],"computing":[46,76,112],"power":[47],"memory":[49],"as":[50,52],"well":[51],"huge":[53],"disk":[54,125,133,146],"storage.":[55],"Current":[56],"popular":[57],"job":[58,128,195],"scheduling":[59,67],"systems":[60],"provide":[61],"efficient":[62],"ways":[63],"for":[64,184],"managing":[65],"based":[72],"on":[73,95,191,203],"available":[75],"resources":[77,113,168],"but":[78,136],"don't":[79],"consider":[80],"maximum":[82,102],"Input/Output":[85],"(I/O).":[86],"Thus,":[87],"when":[88],"executing":[89],"large":[90,97],"number":[91],"genome":[93,157,201,215],"scale":[98],"cluster":[99],"system,":[100],"bandwidth":[103],"storage":[105],"I/O":[106,126,134,147,163,193,238],"is":[107],"insufficient":[108],"utilize":[110],"all":[111,227],"so":[114],"jobs":[117,141,229,233],"are":[118],"frequently":[119],"suspended.":[120],"Here":[121],"we":[122,153,198],"developed":[123],"aware":[127,164,194],"submission":[129,196],"scheduler":[130,165],"maximize":[132],"usage":[135],"not":[137],"hampering":[138],"previously":[139],"running":[140],"due":[142],"heavy":[145],"new":[150],"job.":[151],"And":[152],"constructed":[154],"cancer":[156],"pipeline":[159],"by":[160,218,237],"using":[161],"our":[162,192],"HPC":[167],"National":[170],"Institute":[171],"Supercomputing":[173],"Networking":[175],"(NISN)":[176],"overcome":[178],"obstacles":[180],"data.":[189],"Based":[190],"scheduler,":[197],"performed":[199],"major":[200],"analyses":[202],"over":[204],"50":[205],"case-control":[206],"pairs":[207],"chromophobe":[209],"renal":[210],"cell":[211],"carcinoma":[212],"patients":[213],"whole":[214],"samples":[216],"sequenced":[217],"The":[219],"Cancer":[220],"Genome":[221],"Atlas":[222],"(TCGA)":[223],"successfully":[225],"completed":[226],"while":[230],"maintaining":[231],"no":[232],"be":[235],"suspended":[236],"bottleneck.":[239]},"counts_by_year":[{"year":2022,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
