{"id":"https://openalex.org/W2021755193","doi":"https://doi.org/10.1109/tpds.2003.1255634","title":"Space and time efficient parallel algorithms and software for EST clustering","display_name":"Space and time efficient parallel algorithms and software for EST clustering","publication_year":2003,"publication_date":"2003-12-01","ids":{"openalex":"https://openalex.org/W2021755193","doi":"https://doi.org/10.1109/tpds.2003.1255634","mag":"2021755193"},"language":"en","primary_location":{"id":"doi:10.1109/tpds.2003.1255634","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tpds.2003.1255634","pdf_url":null,"source":{"id":"https://openalex.org/S97130795","display_name":"IEEE Transactions on Parallel and Distributed Systems","issn_l":"1045-9219","issn":["1045-9219","1558-2183","2161-9883"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Parallel and Distributed Systems","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/A5014307317","display_name":"Anantharaman Kalyanaraman","orcid":null},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"A. Kalyanaraman","raw_affiliation_strings":["Department of Computer Science, Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074347913","display_name":"Srinivas Aluru","orcid":"https://orcid.org/0000-0003-4279-469X"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. Aluru","raw_affiliation_strings":["Department of Electrical and Computer Engineering, Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5033118239","display_name":"Volker Brendel","orcid":"https://orcid.org/0000-0002-8055-7508"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"V. Brendel","raw_affiliation_strings":["Department of Zoology and Genetics and the Department of Statistics, Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Zoology and Genetics and the Department of Statistics, Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5111460178","display_name":"S.C. Kothari","orcid":"https://orcid.org/0009-0005-6792-3015"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"S. Kothari","raw_affiliation_strings":["Department of Electrical and Computer Engineering, Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Electrical and Computer Engineering, Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5014307317"],"corresponding_institution_ids":["https://openalex.org/I173911158"],"apc_list":null,"apc_paid":null,"fwci":3.3509,"has_fulltext":false,"cited_by_count":34,"citation_normalized_percentile":{"value":0.9186299,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":90,"max":97},"biblio":{"volume":"14","issue":"12","first_page":"1209","last_page":"1221"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11247","display_name":"Plant nutrient uptake and metabolism","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11247","display_name":"Plant nutrient uptake and metabolism","score":0.9990000128746033,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T11269","display_name":"Algorithms and Data Compression","score":0.9987999796867371,"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":0.9947999715805054,"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/cluster-analysis","display_name":"Cluster analysis","score":0.8509253859519958},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7750218510627747},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.6011267304420471},{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.5988229513168335},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5628780126571655},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4964783787727356},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.3386036157608032},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.30040013790130615},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.10057899355888367}],"concepts":[{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.8509253859519958},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7750218510627747},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.6011267304420471},{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.5988229513168335},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5628780126571655},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4964783787727356},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.3386036157608032},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.30040013790130615},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.10057899355888367},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1109/tpds.2003.1255634","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tpds.2003.1255634","pdf_url":null,"source":{"id":"https://openalex.org/S97130795","display_name":"IEEE Transactions on Parallel and Distributed Systems","issn_l":"1045-9219","issn":["1045-9219","1558-2183","2161-9883"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Parallel and Distributed Systems","raw_type":"journal-article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.118.367","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.118.367","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.ee.iastate.edu/~aluru/software/PaCE/TPDS-PaCE.pdf","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/9","score":0.41999998688697815,"display_name":"Industry, innovation and infrastructure"}],"awards":[],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W603639406","https://openalex.org/W938539187","https://openalex.org/W1589993665","https://openalex.org/W1592075737","https://openalex.org/W1839674003","https://openalex.org/W1971784203","https://openalex.org/W1986022261","https://openalex.org/W1990061958","https://openalex.org/W2003200876","https://openalex.org/W2015292449","https://openalex.org/W2055666215","https://openalex.org/W2059513841","https://openalex.org/W2074231493","https://openalex.org/W2074582967","https://openalex.org/W2077689651","https://openalex.org/W2087064593","https://openalex.org/W2101972919","https://openalex.org/W2104189907","https://openalex.org/W2110732466","https://openalex.org/W2121252285","https://openalex.org/W2124367310","https://openalex.org/W2136466390","https://openalex.org/W2144975794","https://openalex.org/W2150483253","https://openalex.org/W2151308110","https://openalex.org/W2159497035","https://openalex.org/W2166265186","https://openalex.org/W2170906307","https://openalex.org/W2319660501","https://openalex.org/W2533248932","https://openalex.org/W2762948820","https://openalex.org/W4385534213"],"related_works":["https://openalex.org/W2378211422","https://openalex.org/W2745001401","https://openalex.org/W4321353415","https://openalex.org/W2130974462","https://openalex.org/W972276598","https://openalex.org/W4246352526","https://openalex.org/W2028665553","https://openalex.org/W4230315250","https://openalex.org/W2086519370","https://openalex.org/W2087343574"],"abstract_inverted_index":{"Expressed":[0],"sequence":[1],"tags,":[2],"abbreviated":[3],"as":[4,31],"ESTs,":[5],"are":[6,152],"DNA":[7],"molecules":[8],"experimentally":[9],"derived":[10],"from":[11],"expressed":[12],"portions":[13],"of":[14,17,43,58,64,77,85,97,103,112,119,126,157,167],"genes.":[15],"Clustering":[16],"ESTs":[18,129,137],"is":[19],"essential":[20],"for":[21,25,51],"gene":[22],"recognition":[23],"and":[24,41,100,109,133,141],"understanding":[26],"important":[27],"genetic":[28],"variations":[29],"such":[30],"those":[32],"resulting":[33],"in":[34,74,130,138],"diseases.":[35],"We":[36,161],"present":[37,163],"the":[38,69,75,78,90,95,124,155],"algorithmic":[39,86],"foundations":[40],"implementation":[42],"PaCE,":[44],"a":[45,83,117,145],"parallel":[46,104],"software":[47,169],"system":[48],"we":[49,122],"developed":[50],"large-scale":[52],"EST":[53,98,176],"clustering.":[54],"The":[55],"novel":[56],"features":[57],"our":[59,168],"approach":[60],"include":[61],"1)":[62],"design":[63],"space-efficient":[65],"algorithms":[66],"to":[67,72,88,106],"limit":[68],"space":[70],"required":[71],"linear":[73],"size":[76],"input":[79],"data":[80,114],"set,":[81],"2)":[82],"combination":[84,118],"techniques":[87],"reduce":[89,107],"total":[91],"work":[92],"without":[93],"sacrificing":[94],"quality":[96,171],"clustering,":[99],"3)":[101],"use":[102],"processing":[105],"runtime":[108],"facilitate":[110],"clustering":[111,125],"large":[113],"sets.":[115],"Using":[116],"these":[120],"techniques,":[121],"report":[123],"327,632":[127],"rat":[128],"47":[131],"minutes,":[132,143],"420,694":[134],"Triticum":[135],"aestivum":[136],"3":[139],"hours":[140],"15":[142],"using":[144,173],"60-processor":[146],"IBM":[147],"xSeries":[148],"cluster.":[149],"These":[150],"problems":[151],"well":[153],"beyond":[154],"capabilities":[156],"state-of-the-art":[158],"sequential":[159],"software.":[160],"also":[162],"thorough":[164],"experimental":[165],"evaluation":[166],"including":[170],"assessment":[172],"benchmark":[174],"Arabidopsis":[175],"data.":[177]},"counts_by_year":[{"year":2020,"cited_by_count":2},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":3},{"year":2012,"cited_by_count":1}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
