{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,15]],"date-time":"2026-07-15T01:50:57Z","timestamp":1784080257346,"version":"3.55.0"},"reference-count":44,"publisher":"Wiley","issue":"5","license":[{"start":{"date-parts":[[2016,12,1]],"date-time":"2016-12-01T00:00:00Z","timestamp":1480550400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"funder":[{"DOI":"10.13039\/100000048","name":"American Cancer Society","doi-asserted-by":"publisher","award":["RSG\u201014\u2010033\u201001\u2010CPPB"],"award-info":[{"award-number":["RSG\u201014\u2010033\u201001\u2010CPPB"]}],"id":[{"id":"10.13039\/100000048","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000054","name":"National Cancer Institute","doi-asserted-by":"publisher","award":["CA006927"],"award-info":[{"award-number":["CA006927"]}],"id":[{"id":"10.13039\/100000054","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100006364","name":"French National Cancer Institute","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100006364","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Cancer"],"published-print":{"date-parts":[[2017,3]]},"abstract":"<jats:sec><jats:title>BACKGROUND<\/jats:title><jats:p>African Americans with head and neck squamous cell carcinoma (HNSCC) have a lower survival rate than whites. This study investigated the functional importance of ancestry\u2010informative single\u2010nucleotide polymorphisms (SNPs) in HNSCC and also examined the effect of functionally important genetic elements on racial disparities in HNSCC survival.<\/jats:p><\/jats:sec><jats:sec><jats:title>METHODS<\/jats:title><jats:p>Ancestry\u2010informative SNPs, RNA sequencing, methylation, and copy number variation data for 316 oral cavity and laryngeal cancer patients were analyzed across 178 DNA repair genes. The results of expression quantitative trait locus (eQTL) analyses were also replicated with a Gene Expression Omnibus (GEO) data set. The effects of eQTLs on overall survival (OS) and disease\u2010free survival (DFS) were evaluated.<\/jats:p><\/jats:sec><jats:sec><jats:title>RESULTS<\/jats:title><jats:p>Five ancestry\u2010related SNPs were identified as cis\u2010eQTLs in the DNA polymerase \u03b2 (<jats:italic>POLB<\/jats:italic>) gene (false discovery rate [FDR]\u2009&lt;\u20090.01). The homozygous\/heterozygous genotypes containing the African allele showed higher <jats:italic>POLB<\/jats:italic> expression than the homozygous white allele genotype (<jats:italic>P<\/jats:italic>\u2009&lt;\u2009.001). A replication study using a GEO data set validated all 5 eQTLs and also showed a statistically significant difference in <jats:italic>POLB<\/jats:italic> expression based on genetic ancestry (<jats:italic>P<\/jats:italic>\u2009=\u2009.002). An association was observed between these eQTLs and OS (<jats:italic>P<\/jats:italic>\u2009&lt;\u2009.037; FDR\u2009&lt;\u20090.0363) as well as DFS (<jats:italic>P<\/jats:italic>\u2009=\u2009.018 to .0629; FDR\u2009&lt;\u20090.079) for oral cavity and laryngeal cancer patients treated with platinum\u2010based chemotherapy and\/or radiotherapy. Genotypes containing the African allele were associated with poor OS\/DFS in comparison with homozygous genotypes harboring the white allele.<\/jats:p><\/jats:sec><jats:sec><jats:title>CONCLUSIONS<\/jats:title><jats:p>Analyses show that ancestry\u2010related alleles could act as eQTLs in HNSCC and support the association of ancestry\u2010related genetic factors with survival disparities in patients diagnosed with oral cavity and laryngeal cancer. <jats:bold><jats:italic>Cancer<\/jats:italic> 2017;123:849\u201360.<\/jats:bold> \u00a9 <jats:italic>2016 American Cancer Society<\/jats:italic>.<\/jats:p><\/jats:sec>","DOI":"10.1002\/cncr.30457","type":"journal-article","created":{"date-parts":[[2016,12,1]],"date-time":"2016-12-01T10:27:42Z","timestamp":1480588062000},"page":"849-860","source":"Crossref","is-referenced-by-count":28,"title":["Integrative genomic analysis identifies ancestry\u2010related expression quantitative trait loci on DNA polymerase \u03b2 and supports the association of genetic ancestry with survival disparities in head and neck squamous cell carcinoma"],"prefix":"10.1002","volume":"123","author":[{"given":"Meganathan P.","family":"Ramakodi","sequence":"first","affiliation":[{"name":"Cancer Prevention and Control Program, Fox Chase Cancer Center\u2013Temple Health Philadelphia Pennsylvania"},{"name":"Department of Biology Temple University Philadelphia Pennsylvania"},{"name":"Center for Computational Genetics and Genomics Temple University Philadelphia Pennsylvania"},{"name":"Institute for Genomics and Evolutionary Medicine Temple University Philadelphia Pennsylvania"},{"name":"African\u2010Caribbean Cancer Consortium Philadelphia Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Karthik","family":"Devarajan","sequence":"additional","affiliation":[{"name":"Biostatistics and Bioinformatics Facility, Fox Chase Cancer Center\u2013Temple Health Philadelphia Pennsylvania"},{"name":"Department of Epidemiology and Biostatistics, College of Public Health Temple University Philadelphia Pennsylvania"},{"name":"Center for High\u2010Dimensional Statistics, Big Data Institute Temple University Philadelphia Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elizabeth","family":"Blackman","sequence":"additional","affiliation":[{"name":"Cancer Prevention and Control Program, Fox Chase Cancer Center\u2013Temple Health Philadelphia Pennsylvania"},{"name":"African\u2010Caribbean Cancer Consortium Philadelphia Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Denise","family":"Gibbs","sequence":"additional","affiliation":[{"name":"Cancer Prevention and Control Program, Fox Chase Cancer Center\u2013Temple Health Philadelphia Pennsylvania"},{"name":"African\u2010Caribbean Cancer Consortium Philadelphia Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dani\u00e8le","family":"Luce","sequence":"additional","affiliation":[{"name":"African\u2010Caribbean Cancer Consortium Philadelphia Pennsylvania"},{"name":"National Institute for Health and Medical Research (INSERM), Unit 1085; Institute for Research in Health, Environment, and Work (IRSET), Pointe\u2010\u00e0\u2010Pitre Guadeloupe French West Indies"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jacqueline","family":"Deloumeaux","sequence":"additional","affiliation":[{"name":"African\u2010Caribbean Cancer Consortium Philadelphia Pennsylvania"},{"name":"General Cancer Registry of Guadeloupe University Hospital of Pointe\u2010\u00e0\u2010Pitre Pointe\u2010a\u2010Pitre, Guadeloupe French West Indies"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Suzy","family":"Duflo","sequence":"additional","affiliation":[{"name":"Department of Oto\u2010Rhino\u2010Laryngology and Head and Neck Surgery University Hospital of Pointe \u00e0 Pitre Pointe\u2010a\u2010Pitre, Guadeloupe French West Indies"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeffrey C.","family":"Liu","sequence":"additional","affiliation":[{"name":"Head and Neck Surgery, Fox Chase Cancer Center\u2013Temple Health Philadelphia Pennsylvania"},{"name":"Department of Otolaryngology\u2013Head and Neck Surgery, Lewis Katz School of Medicine Temple University School of Medicine Philadelphia Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ranee","family":"Mehra","sequence":"additional","affiliation":[{"name":"Department of Hematology\/Oncology Fox Chase Cancer Center\u2013Temple Health Philadelphia Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rob J.","family":"Kulathinal","sequence":"additional","affiliation":[{"name":"Department of Biology Temple University Philadelphia Pennsylvania"},{"name":"Center for Computational Genetics and Genomics Temple University Philadelphia Pennsylvania"},{"name":"Institute for Genomics and Evolutionary Medicine Temple University Philadelphia Pennsylvania"},{"name":"African\u2010Caribbean Cancer Consortium Philadelphia Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Camille C.","family":"Ragin","sequence":"additional","affiliation":[{"name":"Cancer Prevention and Control Program, Fox Chase Cancer Center\u2013Temple Health Philadelphia Pennsylvania"},{"name":"African\u2010Caribbean Cancer Consortium Philadelphia Pennsylvania"},{"name":"Department of Epidemiology and Biostatistics, College of Public Health Temple University Philadelphia Pennsylvania"},{"name":"Department of Otolaryngology\u2013Head and Neck Surgery, Lewis Katz School of Medicine Temple University School of Medicine Philadelphia Pennsylvania"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2016,12]]},"reference":[{"key":"e_1_2_8_2_1","doi-asserted-by":"publisher","DOI":"10.3322\/caac.21208"},{"key":"e_1_2_8_3_1","doi-asserted-by":"publisher","DOI":"10.3322\/caac.21332"},{"key":"e_1_2_8_4_1","doi-asserted-by":"publisher","DOI":"10.3322\/canjclin.52.6.326"},{"key":"e_1_2_8_5_1","doi-asserted-by":"publisher","DOI":"10.1200\/JCO.2015.62.0096"},{"key":"e_1_2_8_6_1","doi-asserted-by":"publisher","DOI":"10.1093\/annonc\/mdq453"},{"key":"e_1_2_8_7_1","doi-asserted-by":"publisher","DOI":"10.1016\/S0140-6736(08)60728-X"},{"key":"e_1_2_8_8_1","doi-asserted-by":"publisher","DOI":"10.1158\/1078-0432.CCR-10-2641"},{"key":"e_1_2_8_9_1","doi-asserted-by":"publisher","DOI":"10.1093\/jn\/134.11.3207S"},{"key":"e_1_2_8_10_1","doi-asserted-by":"publisher","DOI":"10.1517\/14728214.2010.497754"},{"key":"e_1_2_8_11_1","doi-asserted-by":"publisher","DOI":"10.1038\/nrc2167"},{"key":"e_1_2_8_12_1","doi-asserted-by":"publisher","DOI":"10.1016\/0163-7258(87)90009-X"},{"key":"e_1_2_8_13_1","doi-asserted-by":"publisher","DOI":"10.1007\/PL00000762"},{"key":"e_1_2_8_14_1","first-page":"7377","article-title":"Gleevec\u2010mediated inhibition of Rad51 expression and enhancement of tumor cell radiosensitivity","volume":"63","author":"Russell JS","year":"2003","journal-title":"Cancer Res."},{"key":"e_1_2_8_15_1","doi-asserted-by":"publisher","DOI":"10.1158\/1078-0432.CCR-07-2238"},{"key":"e_1_2_8_16_1","doi-asserted-by":"publisher","DOI":"10.1097\/MPA.0b013e31821ae25b"},{"key":"e_1_2_8_17_1","doi-asserted-by":"publisher","DOI":"10.1038\/sj.onc.1210700"},{"key":"e_1_2_8_18_1","doi-asserted-by":"publisher","DOI":"10.1126\/scitranslmed.3008291"},{"key":"e_1_2_8_19_1","doi-asserted-by":"publisher","DOI":"10.1172\/JCI117388"},{"key":"e_1_2_8_20_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2012.12.034"},{"key":"e_1_2_8_21_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.ajhg.2007.12.015"},{"key":"e_1_2_8_22_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.ygeno.2015.12.004"},{"key":"e_1_2_8_23_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu049"},{"key":"e_1_2_8_24_1","unstructured":"Broad Institute.http:\/\/gdac.broadinstitute.org\/. Accessed April 5 2015."},{"key":"e_1_2_8_25_1","unstructured":"The University of Texas MD Anderson Cancer Center. Human DNA repair genes.http:\/\/sciencepark.mdanderson.org\/labs\/wood\/dna_repair_genes.html. Accessed February 5 2015."},{"key":"e_1_2_8_26_1","doi-asserted-by":"publisher","DOI":"10.1093\/carcin\/bgs172"},{"key":"e_1_2_8_27_1","doi-asserted-by":"publisher","DOI":"10.1038\/leu.2013.368"},{"key":"e_1_2_8_28_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0056823"},{"key":"e_1_2_8_29_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btr330"},{"key":"e_1_2_8_30_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bth457"},{"key":"e_1_2_8_31_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gks1172"},{"key":"e_1_2_8_32_1","doi-asserted-by":"publisher","DOI":"10.1101\/gr.229102"},{"key":"e_1_2_8_33_1","doi-asserted-by":"publisher","DOI":"10.1093\/biomet\/81.3.515"},{"key":"e_1_2_8_34_1","unstructured":"LuceD.An epidemiological study on head and neck cancers in the French West Indies: rationale and study protocol. Paper presented at: 5th International African\u2010Caribbean Cancer Consortium Conference; October 9\u201011 2014; Sch\u0153lcher Martinique."},{"key":"e_1_2_8_35_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-294X.2004.02396.x"},{"key":"e_1_2_8_36_1","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-294X.2005.02553.x"},{"key":"e_1_2_8_37_1","doi-asserted-by":"publisher","DOI":"10.1007\/s12686-011-9548-7"},{"key":"e_1_2_8_38_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btm233"},{"key":"e_1_2_8_39_1","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0505166102"},{"key":"e_1_2_8_40_1","first-page":"3511","article-title":"Deregulated DNA polymerase beta induces chromosome instability and tumorigenesis","volume":"62","author":"Bergoglio V","year":"2002","journal-title":"Cancer Res."},{"key":"e_1_2_8_41_1","doi-asserted-by":"publisher","DOI":"10.1093\/carcin\/20.6.1049"},{"key":"e_1_2_8_42_1","doi-asserted-by":"publisher","DOI":"10.1007\/s00439-006-0294-y"},{"key":"e_1_2_8_43_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkf403"},{"key":"e_1_2_8_44_1","doi-asserted-by":"publisher","DOI":"10.1002\/jso.21275"},{"key":"e_1_2_8_45_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pgen.1004461"}],"container-title":["Cancer"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.wiley.com\/onlinelibrary\/tdm\/v1\/articles\/10.1002%2Fcncr.30457","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/acsjournals.onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/cncr.30457","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,12]],"date-time":"2025-10-12T21:14:31Z","timestamp":1760303671000},"score":1,"resource":{"primary":{"URL":"https:\/\/acsjournals.onlinelibrary.wiley.com\/doi\/10.1002\/cncr.30457"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016,12]]},"references-count":44,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2017,3]]}},"alternative-id":["10.1002\/cncr.30457"],"URL":"https:\/\/doi.org\/10.1002\/cncr.30457","archive":["Portico"],"relation":{},"ISSN":["0008-543X","1097-0142"],"issn-type":[{"value":"0008-543X","type":"print"},{"value":"1097-0142","type":"electronic"}],"subject":[],"published":{"date-parts":[[2016,12]]}}}