title: Ancestral-derived effects on the mutational landscape of laryngeal cancer.
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.
authors.affiliation: Cancer Prevention and Control Program, Fox Chase Cancer Center-Temple Health, Philadelphia, PA 19111, USA; Department of Biology, Temple University, Philadelphia, PA 19122, USA; African-Caribbean Cancer Consortium; Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA 19122, USA.
authors.forename: Meganathan P
authors.initials: MP
authors.lastname: Ramakodi
authors.affiliation: Department of Biology, Temple University, Philadelphia, PA 19122, USA; African-Caribbean Cancer Consortium; Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA 19122, USA.
authors.forename: Rob J
authors.initials: RJ
authors.lastname: Kulathinal
authors.affiliation: Department of Biology, Temple University, Philadelphia, PA 19122, USA; Center for Computational Genetics and Genomics, Temple University, Philadelphia, PA 19122, USA.
authors.forename: Yujin
authors.initials: Y
authors.lastname: Chung
authors.affiliation: Developmental Therapeutics, Fox Chase Cancer Center- Temple Health, Philadelphia, PA 19111, USA; Kazan Federal University, Kazan, Russia.
authors.forename: Ilya
authors.initials: I
authors.lastname: Serebriiskii
authors.affiliation: Cancer Prevention and Control Program, Fox Chase Cancer Center-Temple Health, Philadelphia, PA 19111, USA; Department of Otolaryngology - Head and Neck Surgery, Temple University School of Medicine, Philadelphia, PA 19140, USA.
authors.forename: Jeffrey C
authors.initials: JC
authors.lastname: Liu
authors.affiliation: Cancer Prevention and Control Program, Fox Chase Cancer Center-Temple Health, Philadelphia, PA 19111, USA; African-Caribbean Cancer Consortium; Department of Otolaryngology - Head and Neck Surgery, Temple University School of Medicine, Philadelphia, PA 19140, USA; College of Public Health, Temple University, Philadelphia, PA 19122, USA. Electronic address: Camille.Ragin@fccc.edu.
authors.forename: Camille C
authors.initials: CC
authors.lastname: Ragin
mesh_terms: D001741:Black or African American / Q000235:genetics*; D005787:Gene Frequency; D020022:Genetic Predisposition to Disease / Q000208:ethnology*; D005828:Genetics, Population; D006801:Humans; D007822:Laryngeal Neoplasms / Q000208:ethnology / Q000235:genetics*; D017354:Point Mutation; D014481:United States / Q000208:ethnology; D044465:White People / Q000235:genetics
keywords: African-Americans; Cancer genomics; Context nucleotides; European-Americans; Laryngeal cancer; Mutational landscapes