{"id":"https://openalex.org/W2291895904","doi":"https://doi.org/10.1109/bmei.2015.7401595","title":"Exploiting parallelism for bioinformatics data analysis applications by data transformation graph","display_name":"Exploiting parallelism for bioinformatics data analysis applications by data transformation graph","publication_year":2015,"publication_date":"2015-10-01","ids":{"openalex":"https://openalex.org/W2291895904","doi":"https://doi.org/10.1109/bmei.2015.7401595","mag":"2291895904"},"language":"en","primary_location":{"id":"doi:10.1109/bmei.2015.7401595","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bmei.2015.7401595","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2015 8th International Conference on Biomedical Engineering and Informatics (BMEI)","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/A5085932715","display_name":"Zhenchun Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"ZhenChun Huang","raw_affiliation_strings":["Department of Computer Science and Technology, Tsinghua University, Beijing, China"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Technology, Tsinghua University, Beijing, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069005160","display_name":"Yang Gu","orcid":"https://orcid.org/0000-0002-6584-7216"},"institutions":[{"id":"https://openalex.org/I99065089","display_name":"Tsinghua University","ror":"https://ror.org/03cve4549","country_code":"CN","type":"education","lineage":["https://openalex.org/I99065089"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yang Gu","raw_affiliation_strings":["Department of Computer Science and Technology, Tsinghua University, Beijing, China"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Technology, Tsinghua University, Beijing, China","institution_ids":["https://openalex.org/I99065089"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5056508204","display_name":"Xiaoxuan Bai","orcid":null},"institutions":[{"id":"https://openalex.org/I153374732","display_name":"Liaoning Normal University","ror":"https://ror.org/04c3cgg32","country_code":"CN","type":"education","lineage":["https://openalex.org/I153374732"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"XiaoXuan Bai","raw_affiliation_strings":["School of Computer and Information Technology, Liaoning Normal University, Dalian, China"],"affiliations":[{"raw_affiliation_string":"School of Computer and Information Technology, Liaoning Normal University, Dalian, China","institution_ids":["https://openalex.org/I153374732"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5085932715"],"corresponding_institution_ids":["https://openalex.org/I99065089"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.19389534,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"5","issue":null,"first_page":"710","last_page":"715"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9894000291824341,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},"topics":[{"id":"https://openalex.org/T11986","display_name":"Scientific Computing and Data Management","score":0.9894000291824341,"subfield":{"id":"https://openalex.org/subfields/1802","display_name":"Information Systems and Management"},"field":{"id":"https://openalex.org/fields/18","display_name":"Decision Sciences"},"domain":{"id":"https://openalex.org/domains/2","display_name":"Social Sciences"}},{"id":"https://openalex.org/T10715","display_name":"Distributed and Parallel Computing Systems","score":0.9872000217437744,"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/T10101","display_name":"Cloud Computing and Resource Management","score":0.9703999757766724,"subfield":{"id":"https://openalex.org/subfields/1710","display_name":"Information Systems"},"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":0.8348562717437744},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.6352946758270264},{"id":"https://openalex.org/keywords/speedup","display_name":"Speedup","score":0.6033093333244324},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.51809161901474},{"id":"https://openalex.org/keywords/graph","display_name":"Graph","score":0.4533287286758423},{"id":"https://openalex.org/keywords/data-parallelism","display_name":"Data parallelism","score":0.4440808892250061},{"id":"https://openalex.org/keywords/transformation","display_name":"Transformation (genetics)","score":0.4277052879333496},{"id":"https://openalex.org/keywords/parallelism","display_name":"Parallelism (grammar)","score":0.4039978086948395},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3583197593688965},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.1417848765850067}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8348562717437744},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.6352946758270264},{"id":"https://openalex.org/C68339613","wikidata":"https://www.wikidata.org/wiki/Q1549489","display_name":"Speedup","level":2,"score":0.6033093333244324},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.51809161901474},{"id":"https://openalex.org/C132525143","wikidata":"https://www.wikidata.org/wiki/Q141488","display_name":"Graph","level":2,"score":0.4533287286758423},{"id":"https://openalex.org/C61483411","wikidata":"https://www.wikidata.org/wiki/Q3124522","display_name":"Data parallelism","level":3,"score":0.4440808892250061},{"id":"https://openalex.org/C204241405","wikidata":"https://www.wikidata.org/wiki/Q461499","display_name":"Transformation (genetics)","level":3,"score":0.4277052879333496},{"id":"https://openalex.org/C2781172179","wikidata":"https://www.wikidata.org/wiki/Q853109","display_name":"Parallelism (grammar)","level":2,"score":0.4039978086948395},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3583197593688965},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.1417848765850067},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/bmei.2015.7401595","is_oa":false,"landing_page_url":"https://doi.org/10.1109/bmei.2015.7401595","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"2015 8th International Conference on Biomedical Engineering and Informatics (BMEI)","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":22,"referenced_works":["https://openalex.org/W145805655","https://openalex.org/W1510543252","https://openalex.org/W1570906644","https://openalex.org/W1598064945","https://openalex.org/W1969289728","https://openalex.org/W1984560443","https://openalex.org/W1988888548","https://openalex.org/W2055043387","https://openalex.org/W2072177669","https://openalex.org/W2096041635","https://openalex.org/W2100830825","https://openalex.org/W2122465391","https://openalex.org/W2131229759","https://openalex.org/W2499905000","https://openalex.org/W2995564009","https://openalex.org/W4233210187","https://openalex.org/W4236236547","https://openalex.org/W4239429564","https://openalex.org/W6606052223","https://openalex.org/W6630558366","https://openalex.org/W6635687051","https://openalex.org/W7061587613"],"related_works":["https://openalex.org/W3138386522","https://openalex.org/W2499279132","https://openalex.org/W2950520577","https://openalex.org/W1554644772","https://openalex.org/W2003935582","https://openalex.org/W2494130044","https://openalex.org/W2177838837","https://openalex.org/W3170887803","https://openalex.org/W2963831937","https://openalex.org/W74409296"],"abstract_inverted_index":{"Bioinformatics":[0],"applications":[1,131],"which":[2],"are":[3,90],"both":[4,75],"data-intensive":[5,96],"and":[6,14,20,44,71,78,117,127],"computation-intensive":[7],"bring":[8],"great":[9],"challenges":[10],"to":[11,18,59,124],"their":[12,47],"development":[13],"optimization.":[15],"In":[16],"order":[17],"study":[19,60],"accelerate":[21],"bioinformatics":[22,67,129],"data":[23,29,39,48,62,68,118],"analysis":[24,40,69,130],"models,":[25],"a":[26,94],"method":[27],"named":[28],"transformation":[30,119],"graph":[31,120],"(DTG)":[32],"is":[33,57],"introduced":[34],"first.":[35],"It":[36],"describes":[37],"scientific":[38],"models":[41],"by":[42,74,88],"dependencies":[43],"transformations":[45],"among":[46],"items.":[49],"Then,":[50],"taking":[51],"BLAST":[52,86,109],"as":[53],"an":[54],"example,":[55],"DTG":[56,89],"used":[58,123],"the":[61],"dependency":[63],"in":[64],"this":[65],"popular":[66],"model":[70],"parallel":[72,83,108],"it":[73],"query":[76],"splitting":[77],"database":[79],"partition.":[80],"At":[81],"last,":[82],"versions":[84],"of":[85,103],"proposed":[87],"implemented":[91],"based":[92],"on":[93],"distributed":[95],"computing":[97],"middleware":[98],"called":[99],"Robinia.":[100],"The":[101],"result":[102],"performance":[104],"test":[105],"shows":[106],"that":[107],"can":[110,121],"achieve":[111],"near-linear":[112],"speedup":[113],"with":[114],"good":[115],"scalability,":[116],"be":[122],"study,":[125],"parallelize":[126],"optimize":[128],"for":[132],"higher":[133],"performance.":[134]},"counts_by_year":[],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
