{"id":"https://openalex.org/W2156472251","doi":"https://doi.org/10.1109/ispan.2004.1300550","title":"Identifying transcriptional regulatory sites in the human genome using an integrated computation","display_name":"Identifying transcriptional regulatory sites in the human genome using an integrated computation","publication_year":2004,"publication_date":"2004-01-01","ids":{"openalex":"https://openalex.org/W2156472251","doi":"https://doi.org/10.1109/ispan.2004.1300550","mag":"2156472251"},"language":"en","primary_location":{"id":"doi:10.1109/ispan.2004.1300550","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ispan.2004.1300550","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"7th International Symposium on Parallel Architectures, Algorithms and Networks, 2004. Proceedings.","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/A5040277769","display_name":"Hsien\u2010Da Huang","orcid":"https://orcid.org/0000-0003-2857-7023"},"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":"Hsien-Da Huang","raw_affiliation_strings":["Department of Biological Science and Technology, Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Science and Technology, Institute of Bioinformatics, National Chiao Tung University, Hsinchu, Taiwan","institution_ids":["https://openalex.org/I148366613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016211165","display_name":"Jorng\u2010Tzong Horng","orcid":"https://orcid.org/0000-0002-7671-0573"},"institutions":[{"id":"https://openalex.org/I22265921","display_name":"National Central University","ror":"https://ror.org/00944ve71","country_code":"TW","type":"education","lineage":["https://openalex.org/I22265921"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Jorng-Tzong Horng","raw_affiliation_strings":["Department of Computer Science and Information Engineering, National Central University, Chungli, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Information Engineering, National Central University, Chungli, Taiwan","institution_ids":["https://openalex.org/I22265921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079801565","display_name":"Yiming Sun","orcid":"https://orcid.org/0000-0002-6064-2203"},"institutions":[{"id":"https://openalex.org/I22265921","display_name":"National Central University","ror":"https://ror.org/00944ve71","country_code":"TW","type":"education","lineage":["https://openalex.org/I22265921"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Yi-Ming Sun","raw_affiliation_strings":["Department of Computer Science and Information Engineering, National Central University, Chungli, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Information Engineering, National Central University, Chungli, Taiwan","institution_ids":["https://openalex.org/I22265921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5112020570","display_name":"Ann\u2010Ping Tsou","orcid":null},"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"]},{"id":"https://openalex.org/I96323854","display_name":"National Yang Ming Chiao Tung University","ror":null,"country_code":"TW","type":null,"lineage":["https://openalex.org/I96323854"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Ann-Ping Tsou","raw_affiliation_strings":["Institute of Biotechnology in Medicine, National Yang-Ming University, Taipei, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Institute of Biotechnology in Medicine, National Yang-Ming University, Taipei, Taiwan","institution_ids":["https://openalex.org/I148366613","https://openalex.org/I96323854"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5016053063","display_name":"Shir\u2010Ly Huang","orcid":"https://orcid.org/0000-0002-9252-1289"},"institutions":[{"id":"https://openalex.org/I22265921","display_name":"National Central University","ror":"https://ror.org/00944ve71","country_code":"TW","type":"education","lineage":["https://openalex.org/I22265921"]}],"countries":["TW"],"is_corresponding":false,"raw_author_name":"Shir-Ly Huang","raw_affiliation_strings":["Department of Life Science, National Central University, Chungli, Taiwan"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Life Science, National Central University, Chungli, Taiwan","institution_ids":["https://openalex.org/I22265921"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.11999279,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"262","issue":null,"first_page":"637","last_page":"642"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","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/T10222","display_name":"Genomics and Chromatin Dynamics","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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9983000159263611,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9980999827384949,"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":0.594109058380127},{"id":"https://openalex.org/keywords/regulatory-sequence","display_name":"Regulatory sequence","score":0.5579725503921509},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5195822715759277},{"id":"https://openalex.org/keywords/trace","display_name":"TRACE (psycholinguistics)","score":0.517361581325531},{"id":"https://openalex.org/keywords/biological-database","display_name":"Biological database","score":0.5159764885902405},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5108725428581238},{"id":"https://openalex.org/keywords/transcriptional-regulation","display_name":"Transcriptional regulation","score":0.5031046271324158},{"id":"https://openalex.org/keywords/upstream","display_name":"Upstream (networking)","score":0.47445449233055115},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.4664003252983093},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.44180893898010254},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.41778916120529175},{"id":"https://openalex.org/keywords/regulation-of-gene-expression","display_name":"Regulation of gene expression","score":0.39800605177879333},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.24861398339271545},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.22311213612556458},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21835103631019592},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.19714146852493286}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.594109058380127},{"id":"https://openalex.org/C21592294","wikidata":"https://www.wikidata.org/wiki/Q3238407","display_name":"Regulatory sequence","level":4,"score":0.5579725503921509},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5195822715759277},{"id":"https://openalex.org/C75291252","wikidata":"https://www.wikidata.org/wiki/Q1315756","display_name":"TRACE (psycholinguistics)","level":2,"score":0.517361581325531},{"id":"https://openalex.org/C20901353","wikidata":"https://www.wikidata.org/wiki/Q4117139","display_name":"Biological database","level":2,"score":0.5159764885902405},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5108725428581238},{"id":"https://openalex.org/C27153228","wikidata":"https://www.wikidata.org/wiki/Q3787274","display_name":"Transcriptional regulation","level":4,"score":0.5031046271324158},{"id":"https://openalex.org/C191172861","wikidata":"https://www.wikidata.org/wiki/Q7899321","display_name":"Upstream (networking)","level":2,"score":0.47445449233055115},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.4664003252983093},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.44180893898010254},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.41778916120529175},{"id":"https://openalex.org/C165864922","wikidata":"https://www.wikidata.org/wiki/Q411391","display_name":"Regulation of gene expression","level":3,"score":0.39800605177879333},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.24861398339271545},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.22311213612556458},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21835103631019592},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.19714146852493286},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","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/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1109/ispan.2004.1300550","is_oa":false,"landing_page_url":"https://doi.org/10.1109/ispan.2004.1300550","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"7th International Symposium on Parallel Architectures, Algorithms and Networks, 2004. Proceedings.","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320321040","display_name":"National Science Council","ror":"https://ror.org/02kv4zf79"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":21,"referenced_works":["https://openalex.org/W1592870802","https://openalex.org/W1964007348","https://openalex.org/W1998300401","https://openalex.org/W2003967338","https://openalex.org/W2008991558","https://openalex.org/W2032231928","https://openalex.org/W2060563775","https://openalex.org/W2071398217","https://openalex.org/W2072152345","https://openalex.org/W2099950599","https://openalex.org/W2112814753","https://openalex.org/W2131581981","https://openalex.org/W2137075650","https://openalex.org/W2140115103","https://openalex.org/W2158314946","https://openalex.org/W2164691566","https://openalex.org/W2165270659","https://openalex.org/W2168157737","https://openalex.org/W2168783124","https://openalex.org/W6635200387","https://openalex.org/W6684330608"],"related_works":["https://openalex.org/W2912720016","https://openalex.org/W3102681775","https://openalex.org/W2791405408","https://openalex.org/W4245871433","https://openalex.org/W2102101252","https://openalex.org/W1976009923","https://openalex.org/W1983426369","https://openalex.org/W4313509691","https://openalex.org/W3108101741","https://openalex.org/W2056161765"],"abstract_inverted_index":{"Recently,":[0],"biological":[1,93],"databases":[2],"and":[3,13,31,50,75,104,109],"analytical":[4],"methods":[5,42,52],"have":[6],"become":[7],"available":[8],"for":[9,43,53,119],"analyzing":[10,54],"gene":[11,35,55],"expression":[12],"transcriptional":[14,45,72,120],"regulatory":[15,46,73,80,121],"sequences.":[16],"However,":[17],"users":[18,113],"must":[19],"make":[20],"the":[21,26,34,116],"complicated":[22],"analyses":[23,118],"to":[24,32,70,114],"query":[25],"data":[27,94],"in":[28],"various":[29,38],"databases,":[30],"analyze":[33],"upstreams":[36],"using":[37],"predictive":[39],"tools.":[40],"Beyond":[41],"predicting":[44],"sites,":[47],"new":[48],"automated":[49],"integrated":[51,68],"upstream":[56],"sequences":[57],"on":[58],"a":[59,83,92],"higher":[60],"level":[61],"are":[62,87],"urgently":[63],"required.":[64],"We":[65],"present":[66],"an":[67],"system":[69,90],"predict":[71],"sites":[74,81],"detect":[76],"co-occurrence":[77],"of":[78,85],"these":[79],"after":[82],"set":[84],"genes":[86],"input.":[88],"The":[89],"comprises":[91],"warehousing":[95],"system,":[96],"pattern":[97,100],"discovery":[98],"programs,":[99],"occurrence":[101],"association":[102],"detectors":[103],"user":[105],"interfaces.":[106],"User":[107],"profiles":[108],"history":[110],"pages":[111],"enable":[112],"trace":[115],"sequence":[117],"sites.":[122]},"counts_by_year":[],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
