{"id":"https://openalex.org/W2019717026","doi":"https://doi.org/10.1093/comjnl/bxm003","title":"Innovative Computational Methods for Transcriptomic Data Analysis: A Case Study in the Use of FPT for Practical Algorithm Design and Implementation","display_name":"Innovative Computational Methods for Transcriptomic Data Analysis: A Case Study in the Use of FPT for Practical Algorithm Design and Implementation","publication_year":2007,"publication_date":"2007-03-06","ids":{"openalex":"https://openalex.org/W2019717026","doi":"https://doi.org/10.1093/comjnl/bxm003","mag":"2019717026"},"language":"en","primary_location":{"id":"doi:10.1093/comjnl/bxm003","is_oa":false,"landing_page_url":"https://doi.org/10.1093/comjnl/bxm003","pdf_url":null,"source":{"id":"https://openalex.org/S44643521","display_name":"The Computer Journal","issn_l":"0010-4620","issn":["0010-4620","1460-2067"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Computer Journal","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/A5011863644","display_name":"Michael A. Langston","orcid":"https://orcid.org/0000-0001-5945-5796"},"institutions":[{"id":"https://openalex.org/I75027704","display_name":"University of Tennessee at Knoxville","ror":"https://ror.org/020f3ap87","country_code":"US","type":"education","lineage":["https://openalex.org/I75027704"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"M. A. Langston","raw_affiliation_strings":["Department of Computer Science, University of Tennessee, Knoxville, TN 37996-3450, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tennessee, Knoxville, TN 37996-3450, USA#TAB#","institution_ids":["https://openalex.org/I75027704"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005914571","display_name":"Andy Perkins","orcid":"https://orcid.org/0000-0002-3583-1010"},"institutions":[{"id":"https://openalex.org/I75027704","display_name":"University of Tennessee at Knoxville","ror":"https://ror.org/020f3ap87","country_code":"US","type":"education","lineage":["https://openalex.org/I75027704"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. D. Perkins","raw_affiliation_strings":["Department of Computer Science, University of Tennessee, Knoxville, TN 37996-3450, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tennessee, Knoxville, TN 37996-3450, USA#TAB#","institution_ids":["https://openalex.org/I75027704"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5041646784","display_name":"Arnold M. Saxton","orcid":"https://orcid.org/0000-0003-3345-5127"},"institutions":[{"id":"https://openalex.org/I75027704","display_name":"University of Tennessee at Knoxville","ror":"https://ror.org/020f3ap87","country_code":"US","type":"education","lineage":["https://openalex.org/I75027704"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"A. M. Saxton","raw_affiliation_strings":["Department of Animal Science, University of Tennessee, Knoxville, TN 37996-4574, USA"],"affiliations":[{"raw_affiliation_string":"Department of Animal Science, University of Tennessee, Knoxville, TN 37996-4574, USA","institution_ids":["https://openalex.org/I75027704"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004037069","display_name":"Jon A. Scharff","orcid":null},"institutions":[{"id":"https://openalex.org/I75027704","display_name":"University of Tennessee at Knoxville","ror":"https://ror.org/020f3ap87","country_code":"US","type":"education","lineage":["https://openalex.org/I75027704"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"J. A. Scharff","raw_affiliation_strings":["Department of Computer Science, University of Tennessee, Knoxville, TN 37996-3450, USA#TAB#"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Tennessee, Knoxville, TN 37996-3450, USA#TAB#","institution_ids":["https://openalex.org/I75027704"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5007918640","display_name":"Brynn H. Voy","orcid":"https://orcid.org/0000-0003-1923-9110"},"institutions":[{"id":"https://openalex.org/I1289243028","display_name":"Oak Ridge National Laboratory","ror":"https://ror.org/01qz5mb56","country_code":"US","type":"facility","lineage":["https://openalex.org/I1289243028","https://openalex.org/I1330989302","https://openalex.org/I39565521","https://openalex.org/I4210159294"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"B. H. Voy","raw_affiliation_strings":["Mammalian Genetics and Genomics, Oak Ridge National Laboratory, Oak Ridge, TN 37831-6124, USA"],"affiliations":[{"raw_affiliation_string":"Mammalian Genetics and Genomics, Oak Ridge National Laboratory, Oak Ridge, TN 37831-6124, USA","institution_ids":["https://openalex.org/I1289243028"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5011863644"],"corresponding_institution_ids":["https://openalex.org/I75027704"],"apc_list":{"value":2635,"currency":"GBP","value_usd":3232},"apc_paid":null,"fwci":1.14092475,"has_fulltext":false,"cited_by_count":36,"citation_normalized_percentile":{"value":0.73419237,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"51","issue":"1","first_page":"26","last_page":"38"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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"}},"topics":[{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9995999932289124,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9994000196456909,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9941999912261963,"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":0.7660322189331055},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.5469026565551758},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4142616391181946},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.33749306201934814}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7660322189331055},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.5469026565551758},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4142616391181946},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.33749306201934814}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1093/comjnl/bxm003","is_oa":false,"landing_page_url":"https://doi.org/10.1093/comjnl/bxm003","pdf_url":null,"source":{"id":"https://openalex.org/S44643521","display_name":"The Computer Journal","issn_l":"0010-4620","issn":["0010-4620","1460-2067"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"The Computer Journal","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.47999998927116394,"id":"https://metadata.un.org/sdg/9"}],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":55,"referenced_works":["https://openalex.org/W75155422","https://openalex.org/W161038807","https://openalex.org/W1528914253","https://openalex.org/W1530803355","https://openalex.org/W1584846756","https://openalex.org/W1588911128","https://openalex.org/W1591658152","https://openalex.org/W1592870802","https://openalex.org/W1637197683","https://openalex.org/W1766157213","https://openalex.org/W1976149501","https://openalex.org/W1976697697","https://openalex.org/W1987092466","https://openalex.org/W1989787830","https://openalex.org/W1992452843","https://openalex.org/W1993031800","https://openalex.org/W1999061527","https://openalex.org/W2003352316","https://openalex.org/W2007979101","https://openalex.org/W2008900336","https://openalex.org/W2010656511","https://openalex.org/W2013444425","https://openalex.org/W2018468690","https://openalex.org/W2020681752","https://openalex.org/W2026781850","https://openalex.org/W2036836182","https://openalex.org/W2043004358","https://openalex.org/W2049481764","https://openalex.org/W2061439657","https://openalex.org/W2062014401","https://openalex.org/W2062664462","https://openalex.org/W2065183358","https://openalex.org/W2077542647","https://openalex.org/W2081280838","https://openalex.org/W2082603400","https://openalex.org/W2093017030","https://openalex.org/W2096768449","https://openalex.org/W2108331169","https://openalex.org/W2108334325","https://openalex.org/W2108723074","https://openalex.org/W2110065044","https://openalex.org/W2112090702","https://openalex.org/W2131510173","https://openalex.org/W2133747068","https://openalex.org/W2138247507","https://openalex.org/W2148541040","https://openalex.org/W2151326548","https://openalex.org/W2154437541","https://openalex.org/W2155335955","https://openalex.org/W2158128075","https://openalex.org/W2163480486","https://openalex.org/W2163988673","https://openalex.org/W2166400826","https://openalex.org/W2611104316","https://openalex.org/W2611831635"],"related_works":["https://openalex.org/W2117014006","https://openalex.org/W4233815414","https://openalex.org/W2372170743","https://openalex.org/W1558545464","https://openalex.org/W2074301136","https://openalex.org/W1984303163","https://openalex.org/W1509211761","https://openalex.org/W2358725432","https://openalex.org/W3047022145","https://openalex.org/W99847340"],"abstract_inverted_index":{"Tools":[0],"of":[1,8,28,45,70,89,107,163,172,175,183,239,256,260],"molecular":[2],"biology":[3],"and":[4,35,39,86,96,109,113,120,198,245],"the":[5,16,67,122,170,180,193,218,230,257],"evolving":[6],"tools":[7],"genomics":[9],"can":[10],"now":[11],"be":[12,188],"exploited":[13],"to":[14,24,49,76,102,117,149,187,210,216,229,249],"study":[15],"genetic":[17,142],"regulatory":[18,143],"mechanisms":[19,144],"that":[20,65,145,220,237],"control":[21,146],"cellular":[22,147],"responses":[23,31,59,148,248],"a":[25,51,132,226],"wide":[26],"variety":[27],"stimuli.":[29],"These":[30],"are":[32,48,177,221],"highly":[33],"complex,":[34],"involve":[36],"many":[37],"genes":[38],"gene":[40,79,104,125,204],"products.":[41],"The":[42,233],"main":[43],"objectives":[44],"this":[46],"paper":[47],"describe":[50,136],"novel":[52],"research":[53],"program":[54],"centered":[55],"on":[56],"understanding":[57,255],"these":[58,90,100,240],"by":[60],"i.developing":[61],"powerful":[62],"graph":[63],"algorithms":[64,91],"exploit":[66],"innovative":[68],"principles":[69],"fixed":[71],"parameter":[72],"tractability":[73],"in":[74,192,208,214],"order":[75],"generate":[77],"distilled":[78],"sets;":[80],"ii.producing":[81],"scalable,":[82],"high":[83,173],"performance":[84],"parallel":[85],"distributed":[87],"implementations":[88,101],"utilizing":[92],"cutting-edge":[93],"computing":[94],"platforms":[95],"auxiliary":[97],"resources;":[98],"iii.employing":[99],"identify":[103,217],"sets":[105,126],"suggestive":[106],"co-regulation;":[108],"iv.performing":[110],"sequence":[111],"analysis":[112],"genomic":[114],"data":[115,206],"mining":[116],"examine,":[118],"winnow":[119],"highlight":[121],"most":[123,165],"promising":[124],"for":[127,195],"more":[128],"detailed":[129],"investigation.":[130],"As":[131],"case":[133],"study,":[134],"we":[135],"our":[137,254],"work":[138],"aimed":[139],"at":[140,164],"elucidating":[141],"low-dose":[150,155,184,211,261],"ionizing":[151],"radiation":[152,176,231,262],"(IR).":[153],"A":[154],"exposure,":[156],"as":[157,225],"defined":[158],"here,":[159],"is":[160,236],"an":[161],"exposure":[162,213],"10":[166],"cGy":[167],"(rads).":[168],"While":[169],"consequences":[171,259],"doses":[174],"well":[178],"known,":[179],"net":[181],"outcome":[182],"exposures":[185],"continues":[186],"debated,":[189],"with":[190],"support":[191],"literature":[194],"both":[196],"detrimental":[197],"beneficialmore\u00a0\u00bb":[199],"effects.":[200],"We":[201],"use":[202],"genome-scale":[203],"expression":[205],"collected":[207],"response":[209],"IR":[212],"vivo":[215],"pathways":[219,241],"activated":[222],"or":[223],"repressed":[224],"tissue":[227],"responds":[228],"insult.":[232],"driving":[234],"motivation":[235],"knowledge":[238],"will":[242,252],"help":[243],"clarify":[244],"interpret":[246],"physiological":[247],"IR,":[250],"which":[251],"advance":[253],"health":[258],"exposures.\u00ab\u00a0less":[263]},"counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":3},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":4}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
