{"id":"https://openalex.org/W1986997536","doi":"https://doi.org/10.1016/s0959-8049(14)50003-2","title":"3: The cancer epigenome","display_name":"3: The cancer epigenome","publication_year":2013,"publication_date":"2013-10-01","ids":{"openalex":"https://openalex.org/W1986997536","doi":"https://doi.org/10.1016/s0959-8049(14)50003-2","mag":"1986997536","pmid":"https://pubmed.ncbi.nlm.nih.gov/24237331"},"language":"en","primary_location":{"id":"doi:10.1016/s0959-8049(14)50003-2","doi":"https://doi.org/10.1016/s0959-8049(14)50003-2","is_oa":false,"landing_page_url":"https://doi.org/10.1016/s0959-8049(14)50003-2","pdf_url":null,"source":{"id":"https://openalex.org/S16731738","display_name":"European Journal of Cancer","issn_l":"0959-8049","issn":["0959-8049","1879-0852"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"European Journal of Cancer","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://cdnsciencepub.com/doi/pdf/10.1139/gen-2013-0147","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5088347458","display_name":"Peter A. Jones","orcid":"https://orcid.org/0000-0001-8309-4767","observed_orcids":["https://orcid.org/0000-0001-8309-4767"]},"institutions":[{"id":"https://openalex.org/I1174212","display_name":"University of Southern California","ror":"https://ror.org/03taz7m60","country_code":"US","type":"education","lineage":["https://openalex.org/I1174212"]},{"id":"https://openalex.org/I4210117038","display_name":"USC Norris Comprehensive Cancer Center","ror":"https://ror.org/01nmyfr60","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I2800154431","https://openalex.org/I4210117038"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"P. Jones","raw_affiliation_strings":["Department of Urology, Department of Biochemistry and Molecular Biology, Norris Comprehensive Cancer Center, Keck School of Medicine, University of Southern California, Los Angeles, CA 90033, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Urology, Department of Biochemistry and Molecular Biology, Norris Comprehensive Cancer Center, Keck School of Medicine, University of Southern California, Los Angeles, CA 90033, USA","institution_ids":["https://openalex.org/I1174212","https://openalex.org/I4210117038"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5088347458"],"corresponding_institution_ids":["https://openalex.org/I1174212","https://openalex.org/I4210117038"],"apc_list":{"value":4270,"currency":"USD","value_usd":4270},"apc_paid":null,"fwci":0.1492,"has_fulltext":false,"cited_by_count":3,"citation_normalized_percentile":{"value":0.54341679,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"50","issue":"10","first_page":"540","last_page":"541"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9932000041007996,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9932000041007996,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.00570000009611249,"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/T12820","display_name":"Chromatin Remodeling and Cancer","score":0.00019999999494757503,"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/cancer-epigenome","display_name":"cancer epigenome","score":0.9629999995231628},{"id":"https://openalex.org/keywords/dna-methylation","display_name":"DNA methylation","score":0.7730000019073486},{"id":"https://openalex.org/keywords/cpg-islands","display_name":"CpG islands","score":0.9769999980926514},{"id":"https://openalex.org/keywords/promoter-silencing","display_name":"promoter silencing","score":0.6779999732971191},{"id":"https://openalex.org/keywords/nucleosome-occupancy","display_name":"nucleosome occupancy","score":0.7850000262260437},{"id":"https://openalex.org/keywords/histone-deacetylation","display_name":"histone deacetylation","score":0.9190000295639038},{"id":"https://openalex.org/keywords/histone-modifications","display_name":"histone modifications","score":0.8669999837875366},{"id":"https://openalex.org/keywords/nucleosome-eviction","display_name":"nucleosome eviction","score":0.7250000238418579},{"id":"https://openalex.org/keywords/epigenetic-therapy","display_name":"epigenetic therapy","score":0.6909999847412109},{"id":"https://openalex.org/keywords/tumor-suppressor-genes","display_name":"tumor suppressor","score":0.8610000014305115},{"id":"https://openalex.org/keywords/non-coding-rna","display_name":"non-coding RNA","score":0.9350000023841858},{"id":"https://openalex.org/keywords/carcinogenesis","display_name":"carcinogenesis","score":0.6990000009536743}],"concepts":[{"id":"https://openalex.org/C37080517","wikidata":"https://www.wikidata.org/wiki/Q18353747","display_name":"Epigenetics of physical exercise","level":5,"score":0.7292648553848267},{"id":"https://openalex.org/C117717151","wikidata":"https://www.wikidata.org/wiki/Q3589155","display_name":"Epigenome","level":5,"score":0.6387463808059692},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6089745163917542},{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.5930673480033875},{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.5735172033309937},{"id":"https://openalex.org/C121912465","wikidata":"https://www.wikidata.org/wiki/Q3589153","display_name":"Epigenomics","level":5,"score":0.5654531717300415},{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.5337425470352173},{"id":"https://openalex.org/C114691636","wikidata":"https://www.wikidata.org/wiki/Q5031434","display_name":"Cancer epigenetics","level":5,"score":0.5223406553268433},{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.5193237066268921},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.5026519298553467},{"id":"https://openalex.org/C140173407","wikidata":"https://www.wikidata.org/wiki/Q1138358","display_name":"CpG site","level":5,"score":0.48161453008651733},{"id":"https://openalex.org/C22709980","wikidata":"https://www.wikidata.org/wiki/Q4117777","display_name":"Histone methylation","level":5,"score":0.44098570942878723},{"id":"https://openalex.org/C101762097","wikidata":"https://www.wikidata.org/wiki/Q224093","display_name":"Promoter","level":4,"score":0.4395718574523926},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3701191246509552},{"id":"https://openalex.org/C153911025","wikidata":"https://www.wikidata.org/wiki/Q7202","display_name":"Molecular biology","level":1,"score":0.3588082194328308},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.3279339671134949},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.2863801121711731},{"id":"https://openalex.org/C150425827","wikidata":"https://www.wikidata.org/wiki/Q2560317","display_name":"Histone methyltransferase","level":4,"score":0.27938881516456604},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.16889846324920654},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.11691635847091675}],"mesh":[{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009369","descriptor_name":"Neoplasms","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D019175","descriptor_name":"DNA Methylation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D044127","descriptor_name":"Epigenesis, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D052138","descriptor_name":"Genes, Neoplasm","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057890","descriptor_name":"Epigenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1016/s0959-8049(14)50003-2","doi":"https://doi.org/10.1016/s0959-8049(14)50003-2","is_oa":false,"landing_page_url":"https://doi.org/10.1016/s0959-8049(14)50003-2","pdf_url":null,"source":{"id":"https://openalex.org/S16731738","display_name":"European Journal of Cancer","issn_l":"0959-8049","issn":["0959-8049","1879-0852"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-b","doyens","jufo-2","ki-jl-2","medline","norway-2","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"European Journal of Cancer","raw_type":"journal-article"},{"id":"doi:10.1139/gen-2013-0147","doi":"https://doi.org/10.1139/gen-2013-0147","is_oa":true,"landing_page_url":"https://doi.org/10.1139/gen-2013-0147","pdf_url":"https://cdnsciencepub.com/doi/pdf/10.1139/gen-2013-0147","source":{"id":"https://openalex.org/S170991295","display_name":"Genome","issn_l":"0831-2796","issn":["0831-2796","1480-3321"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-c","jufo-1","medline","norway-1","poland-70","russia-white-list-2"],"host_organization":"https://openalex.org/P4310312929","host_organization_name":"Canadian Science Publishing","host_organization_lineage":["https://openalex.org/P4310312929"],"host_organization_lineage_names":["Canadian Science Publishing"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genome","raw_type":"journal-article"},{"id":"pmid:24237331","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24237331","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genome","raw_type":"Lecture"},{"id":"mag:1986997536","doi":null,"is_oa":false,"landing_page_url":"https://mct.aacrjournals.org/content/6/11_Supplement/PL03-03","pdf_url":null,"source":{"id":"https://openalex.org/S48437117","display_name":"Molecular Cancer Therapeutics","issn_l":"1535-7163","issn":["1535-7163","1538-8514"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-b","doyens","jufo-1","ki-jl-1","medline","norway-2","poland-140","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320273","host_organization_name":"American Association for Cancer Research","host_organization_lineage":["https://openalex.org/P4310320273"],"host_organization_lineage_names":["American Association for Cancer Research"],"type":"journal"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false,"raw_source_name":"Molecular Cancer Therapeutics","raw_type":null}],"best_oa_location":{"id":"doi:10.1139/gen-2013-0147","doi":"https://doi.org/10.1139/gen-2013-0147","is_oa":true,"landing_page_url":"https://doi.org/10.1139/gen-2013-0147","pdf_url":"https://cdnsciencepub.com/doi/pdf/10.1139/gen-2013-0147","source":{"id":"https://openalex.org/S170991295","display_name":"Genome","issn_l":"0831-2796","issn":["0831-2796","1480-3321"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["cwts-core","dongbi-c","jufo-1","medline","norway-1","poland-70","russia-white-list-2"],"host_organization":"https://openalex.org/P4310312929","host_organization_name":"Canadian Science Publishing","host_organization_lineage":["https://openalex.org/P4310312929"],"host_organization_lineage_names":["Canadian Science Publishing"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Genome","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3","score":0.8048999905586243}],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1986997536.pdf","grobid_xml":"https://content.openalex.org/works/W1986997536.grobid-xml"},"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W2108010006","https://openalex.org/W6927010402","https://openalex.org/W2166389246","https://openalex.org/W1970358051","https://openalex.org/W2314940824","https://openalex.org/W2040921271","https://openalex.org/W1968763732","https://openalex.org/W2154719999","https://openalex.org/W2587621714","https://openalex.org/W2088911122"],"abstract_inverted_index":{"PL03-03":[0],"Epigenetic":[2],"silencing":[3,217],"of":[4,29,42,55,65,68,76,109,143,173,220],"tumor":[5],"suppressor":[6],"genes":[7],"and":[8,60,88,128,160,191,218],"non-coding":[9],"RNAs":[10],"plays":[11,101],"a":[12,102,118],"major":[13],"role":[14,104],"in":[15,37,49,62,71,105,138,168,184,188,203,215],"human":[16,30,132],"carcinogenesis.":[17],"CpG":[18,123,133],"islands,":[19],"which":[20,204],"are":[21,135],"frequently":[22],"located":[23],"at":[24,205],"the":[25,53,63,77,82,107,110,139,144,169,174,216],"transcription":[26],"start":[27,145],"sites":[28],"genes,":[31],"can":[32],"become":[33],"abnormally":[34],"methylated":[35,56],"resulting":[36],"heritable":[38],"silencing.":[39],"This":[40],"methylation":[41,159,190],"cytosine":[43,90,158,189],"residues":[44,70],"is":[45,94],"associated":[46],"with":[47,149],"alterations":[48],"chromatin":[50,223],"structure":[51],"including":[52],"binding":[54,58],"DNA":[57,89,157,178],"proteins":[59],"changes":[61,187],"state":[64],"covalent":[66,85,192],"modification":[67],"histone":[69,86,193],"nucleosomes.":[72],"Until":[73],"now,":[74],"most":[75],"focus":[78],"has":[79],"been":[80],"on":[81],"interplay":[83],"between":[84],"modifications":[87],"methylation.":[91],"However,":[92],"it":[93],"becoming":[95],"increasingly":[96],"apparent":[97],"that":[98,130],"nucleosomal":[99,126,182],"occupancy":[100,127],"substantial":[103],"controlling":[106],"accessibility":[108],"promoter":[111],"to":[112,121,186,212],"transcriptional":[113],"factors.":[114],"We":[115],"have":[116,165,197,211],"developed":[117],"new":[119],"assay":[120],"examine":[122],"islands":[124,134],"for":[125,200],"found":[129],"several":[131],"missing":[136],"nucleosomes":[137,167],"regions":[140],"just":[141],"upstream":[142],"sites.":[146],"Cancer":[147],"cells":[148],"epigenetically":[150],"silenced":[151,175],"promoters":[152,176,221],"showed":[153],"not":[154],"only":[155],"extensive":[156],"deacetylated":[161],"histones":[162],"but":[163],"also":[164],"extra":[166],"promoter.":[170],"Strikingly":[171],"activation":[172],"by":[177,222],"demethylating":[179],"drugs":[180],"involves":[181],"eviction":[183],"addition":[185],"modifications.":[194],"These":[195],"observations":[196],"important":[198],"implications":[199],"epigenetic":[201],"therapy":[202],"least":[206],"three":[207],"interacting":[208],"biological":[209],"processes":[210],"be":[213],"considered":[214],"reactivation":[219],"modifying":[224],"drugs.":[225]},"counts_by_year":[{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}