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Ramakodi MP , Kulathinal RJ , Chung Y , Serebriiskii I , Liu JC , Ragin CC
Ancestral-derived effects on the mutational landscape of laryngeal cancer
Genomics. 2016 Mar;107(2-3) :76-82
PMID: 26721311    PMCID: PMC4761303   
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Abstract
Laryngeal cancer disproportionately affects more African-Americans than European-Americans. Here, we analyze the genome-wide somatic point mutations from the tumors of 13 African-Americans and 57 European-Americans from TCGA to differentiate between environmental and ancestrally-inherited factors. The mean number of mutations was different between African-Americans (151.31) and European-Americans (277.63). Other differences in the overall mutational landscape between African-American and European-American were also found. The frequency of C>A, and C>G were significantly different between the two populations (p-value<0.05). Context nucleotide signatures for some mutation types significantly differ between these two populations. Thus, the context nucleotide signatures along with other factors could be related to the observed mutational landscape differences between two races. Finally, we show that mutated genes associated with these mutational differences differ between the two populations. Thus, at the molecular level, race appears to be a factor in the progression of laryngeal cancer with ancestral genomic signatures best explaining these differences.
Notes
1089-8646 Ramakodi, Meganathan P Kulathinal, Rob J Chung, Yujin Serebriiskii, Ilya Liu, Jeffrey C Ragin, Camille C P30 CA006927/CA/NCI NIH HHS/United States CA006927-50/CA/NCI NIH HHS/United States Journal Article United States Genomics. 2016 Mar;107(2-3):76-82. doi: 10.1016/j.ygeno.2015.12.004. Epub 2015 Dec 22.