{"id":"https://openalex.org/W113368877","doi":null,"title":"A Bioinformatics Study of Human Transcriptional Regulation","display_name":"A Bioinformatics Study of Human Transcriptional Regulation","publication_year":2008,"publication_date":"2008-01-01","ids":{"openalex":"https://openalex.org/W113368877","mag":"113368877"},"language":"en","primary_location":{"id":"pmh:oai:DiVA.org:uu-9346","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-9346","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I86987016","host_organization_name":"KTH Royal Institute of Technology","host_organization_lineage":["https://openalex.org/I86987016"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/doctoralThesis"},"volume":null,"type":"dissertation","is_traditional":true,"indexed_in":[],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-9346","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5088555276","display_name":"Adam Ameur","orcid":"https://orcid.org/0000-0001-6085-6749","observed_orcids":["https://orcid.org/0000-0001-6085-6749"]},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Adam Ameur","raw_affiliation_strings":[],"raw_orcid":"https://orcid.org/0000-0001-6085-6749","affiliations":[]}],"institutions":[],"countries_distinct_count":0,"institutions_distinct_count":0,"corresponding_author_ids":["https://openalex.org/A5088555276"],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9887999892234802,"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":0.9887999892234802,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.0027000000700354576,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0026000000070780516,"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/transcriptional-regulation","display_name":"transcriptional regulation","score":0.9950000047683716},{"id":"https://openalex.org/keywords/transcription-factors","display_name":"transcription factors","score":0.9660000205039978},{"id":"https://openalex.org/keywords/microarray-analysis","display_name":"microarray data analysis","score":0.7950000166893005},{"id":"https://openalex.org/keywords/next-generation-sequencing","display_name":"next-generation sequencing","score":0.8769999742507935},{"id":"https://openalex.org/keywords/histone-modifications","display_name":"histone modifications","score":0.8949999809265137},{"id":"https://openalex.org/keywords/bidirectional-promoter","display_name":"bidirectional promoter","score":0.5699999928474426},{"id":"https://openalex.org/keywords/hepatocytes","display_name":"hepatocytes","score":0.6380000114440918},{"id":"https://openalex.org/keywords/single-nucleotide-polymorphisms","display_name":"single nucleotide polymorphisms","score":0.9269999861717224},{"id":"https://openalex.org/keywords/regulatory-snps","display_name":"regulatory SNPs","score":0.8930000066757202},{"id":"https://openalex.org/keywords/transcription-factor-binding-sites","display_name":"transcription factor binding sites","score":0.6079999804496765},{"id":"https://openalex.org/keywords/metabolic-disorders","display_name":"metabolic disorders","score":0.6800000071525574}],"concepts":[{"id":"https://openalex.org/C89611455","wikidata":"https://www.wikidata.org/wiki/Q6804646","display_name":"Mechanism (biology)","level":2,"score":0.5690129995346069},{"id":"https://openalex.org/C179926584","wikidata":"https://www.wikidata.org/wiki/Q207714","display_name":"Transcription (linguistics)","level":2,"score":0.503511369228363},{"id":"https://openalex.org/C27153228","wikidata":"https://www.wikidata.org/wiki/Q3787274","display_name":"Transcriptional regulation","level":4,"score":0.49935317039489746},{"id":"https://openalex.org/C86339819","wikidata":"https://www.wikidata.org/wiki/Q407384","display_name":"Transcription factor","level":3,"score":0.44841092824935913},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4362561106681824},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4202858805656433},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3829859793186188},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3717574179172516},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.32018786668777466},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.2584749460220337},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.21039345860481262},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.07751056551933289},{"id":"https://openalex.org/C41895202","wikidata":"https://www.wikidata.org/wiki/Q8162","display_name":"Linguistics","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"pmh:oai:DiVA.org:uu-9346","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-9346","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I86987016","host_organization_name":"KTH Royal Institute of Technology","host_organization_lineage":["https://openalex.org/I86987016"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/doctoralThesis"},{"id":"mag:113368877","doi":null,"is_oa":false,"landing_page_url":"http://swepub.kb.se/bib/swepub:oai:DiVA.org:uu-9346","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null}],"best_oa_location":{"id":"pmh:oai:DiVA.org:uu-9346","doi":null,"is_oa":true,"landing_page_url":"http://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-9346","pdf_url":null,"source":{"id":"https://openalex.org/S4306401559","display_name":"KTH Publication Database DiVA (KTH Royal Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I86987016","host_organization_name":"KTH Royal Institute of Technology","host_organization_lineage":["https://openalex.org/I86987016"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/doctoralThesis"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/3","score":0.504800021648407,"display_name":"Good health and well-being"}],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":84,"referenced_works":["https://openalex.org/W305672506","https://openalex.org/W1484187172","https://openalex.org/W1542419907","https://openalex.org/W1544923801","https://openalex.org/W1969691479","https://openalex.org/W1970156673","https://openalex.org/W1978104691","https://openalex.org/W1981093360","https://openalex.org/W2001798854","https://openalex.org/W2002698073","https://openalex.org/W2013444425","https://openalex.org/W2015416439","https://openalex.org/W2016927884","https://openalex.org/W2017840637","https://openalex.org/W2020541351","https://openalex.org/W2020659583","https://openalex.org/W2029197798","https://openalex.org/W2029441111","https://openalex.org/W2029778722","https://openalex.org/W2031119996","https://openalex.org/W2038697069","https://openalex.org/W2041467022","https://openalex.org/W2049260878","https://openalex.org/W2053478107","https://openalex.org/W2053818267","https://openalex.org/W2056696298","https://openalex.org/W2059699217","https://openalex.org/W2060392690","https://openalex.org/W2062875409","https://openalex.org/W2065579185","https://openalex.org/W2073850887","https://openalex.org/W2081098333","https://openalex.org/W2083245183","https://openalex.org/W2096083625","https://openalex.org/W2097117811","https://openalex.org/W2097220641","https://openalex.org/W2097948691","https://openalex.org/W2099057503","https://openalex.org/W2100471807","https://openalex.org/W2100668965","https://openalex.org/W2102304447","https://openalex.org/W2103017472","https://openalex.org/W2103302926","https://openalex.org/W2103903744","https://openalex.org/W2104865962","https://openalex.org/W2105793531","https://openalex.org/W2106617991","https://openalex.org/W2107989651","https://openalex.org/W2109363337","https://openalex.org/W2110065044","https://openalex.org/W2112113834","https://openalex.org/W2115761267","https://openalex.org/W2116459725","https://openalex.org/W2121211805","https://openalex.org/W2121356022","https://openalex.org/W2122699308","https://openalex.org/W2124388496","https://openalex.org/W2126602684","https://openalex.org/W2127230663","https://openalex.org/W2128936012","https://openalex.org/W2128937741","https://openalex.org/W2129795133","https://openalex.org/W2131581981","https://openalex.org/W2132508108","https://openalex.org/W2133938268","https://openalex.org/W2135557996","https://openalex.org/W2138175151","https://openalex.org/W2139760555","https://openalex.org/W2141222206","https://openalex.org/W2142749416","https://openalex.org/W2143124024","https://openalex.org/W2151732271","https://openalex.org/W2152556351","https://openalex.org/W2157795344","https://openalex.org/W2160697532","https://openalex.org/W2166037178","https://openalex.org/W2168390964","https://openalex.org/W2168783124","https://openalex.org/W2168909179","https://openalex.org/W2169318796","https://openalex.org/W2171808845","https://openalex.org/W2247766769","https://openalex.org/W2295428206","https://openalex.org/W2612812586"],"related_works":["https://openalex.org/W276654212","https://openalex.org/W2131927539","https://openalex.org/W74189222","https://openalex.org/W7001347304","https://openalex.org/W172426086","https://openalex.org/W2073353074","https://openalex.org/W7100288438","https://openalex.org/W2172342521","https://openalex.org/W2111840226","https://openalex.org/W7117322656"],"abstract_inverted_index":{"Regulation":[0],"of":[1,41,73,87,95,183,200,218,224,262],"transcription":[2,29,35,184,274],"is":[3],"a":[4,50,130,203,210,227,249,263],"central":[5],"mechanism":[6],"in":[7,59,107,148,164,202,214,242,275],"all":[8],"living":[9],"cells":[10,151],"that":[11,167,209,258,270],"now":[12],"can":[13,212,272],"be":[14,240],"investigated":[15,155,176,235],"with":[16],"high-throughput":[17,98],"technologies.":[18,99],"Data":[19],"produced":[20],"from":[21,49,75,97],"such":[22],"experiments":[23],"give":[24],"new":[25,250],"insights":[26],"to":[27,89,144,158,189,239,252,285],"how":[28],"factors":[30],"(TFs)":[31],"coordinate":[32],"the":[33,39,91,108,165,215,230,234,260,276],"gene":[34],"and":[36,77,114,187,221],"thereby":[37],"regulate":[38,222],"amounts":[40],"proteins":[42,55],"produced.":[43],"These":[44,192],"studies":[45],"are":[46,56,179,195,237],"also":[47,128],"important":[48],"medical":[51,228],"perspective":[52],"since":[53],"TF":[54,211,264],"often":[57],"involved":[58,241],"disease.":[60],"To":[61],"learn":[62],"more":[63],"about":[64],"transcriptional":[65,190],"regulation,":[66],"we":[67,168,246],"have":[68,104,118,127,169,247],"developed":[69,120,129,248],"strategies":[70,117],"for":[71,121,198],"analysis":[72,102,116,141],"data":[74,96,101,123],"microarray":[76],"massively":[78],"parallel":[79],"sequencing":[80],"(MPS)":[81],"experiments.":[82],"Our":[83,206],"computational":[84],"results":[85,207],"consist":[86],"methods":[88],"handle":[90],"steadily":[92],"increasing":[93],"amount":[94],"Microarray":[100],"tools":[103],"been":[105,119],"assembled":[106],"LCB-Data":[109],"Warehouse":[110],"(LCB-DWH)":[111],"(paper":[112,124,138,265],"I),":[113],"other":[115],"MPS":[122],"V).":[125],"We":[126,267],"de":[131],"novo":[132],"motif":[133],"search":[134],"algorithm":[135],"called":[136],"BCRANK":[137],"IV).":[139,266],"The":[140,154,175],"has":[142],"lead":[143],"interesting":[145],"biological":[146],"findings":[147],"human":[149],"liver":[150],"(papers":[152],"II-V).":[153],"TFs":[156,236],"appeared":[157],"bind":[159,213],"at":[160,171],"several":[161],"thousand":[162],"sites":[163],"genome,":[166],"identified":[170],"base":[172],"pair":[173],"resolution.":[174],"histone":[177,193],"modifications":[178],"mainly":[180],"found":[181,197],"downstream":[182],"start":[185],"sites,":[186],"correlated":[188],"activity.":[191],"marks":[194],"frequently":[196],"pairs":[199],"genes":[201,220,231],"bidirectional":[204],"conformation.":[205],"suggest":[208],"shared":[216],"promoter":[217],"two":[219],"both":[223],"them.":[225],"From":[226],"perspective,":[229],"bound":[232],"by":[233],"candidates":[238],"metabolic":[243],"disorders.":[244],"Moreover,":[245],"strategy":[251],"detect":[253],"single":[254],"nucleotide":[255],"polymorphisms":[256],"(SNPs)":[257],"disrupt":[259],"binding":[261],"further":[268],"demonstrated":[269],"SNPs":[271],"affect":[273],"immediate":[277],"vicinity.":[278],"Ultimately,":[279],"our":[280],"method":[281],"may":[282],"prove":[283],"helpful":[284],"find":[286],"disease-causing":[287],"regulatory":[288],"SNPs.":[289]},"counts_by_year":[],"updated_date":"2026-09-04T10:56:28.161419","created_date":"2016-06-24T00:00:00"}
