Epigenetic analysis identifies factors driving racial disparity in prostate cancer

Rai, R.; Yadav, S. S.; Pan, H.; O'Connor, J.; Alshalalfa, M.; Davicioni, E.; Taioli, E.; Elemento, O.; Tewari, A. K.; Yadav, K. K.

doi:10.1101/352138

bioRxiv · 10.1101/352138

Epigenetic analysis identifies factors driving racial disparity in prostate cancer

Rai, R.·Yadav, S. S.·Pan, H.·O'Connor, J.·Alshalalfa, M.·Davicioni, E.·Taioli, E.·Elemento, O.·Tewari, A. K.·Yadav, K. K.

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Abstract

Prostate cancer (PCa) is the second most leading cause of death in men worldwide. African American men (AA) represent more aggressive form of PCa as compared to Caucasian (CA) counterparts. Evidence suggests that genetic and other biological factors could account for the observed racial disparity. We analyzed the cancer genome atlas (TCGA) dataset (2015) for existing epigenetic variation in AA and CA prostate cancer patients, and carried out Reduced Representation Bisulphite Sequencing (RRBS) analysis to identify global methylation changes in AA and CA prostate cancer patients. The TCGA dataset analysis revealed that the epigenetic heterogeneity could be categorized into 4 classes, where AA associated primarily to methylation cluster 1 (p value 0.048), and CA associated to methylation cluster 3 (p value 0.000146). We identified enrichment of Wnt signaling genes in both AA and CA, however they were differentially activated in terms of canonical and non-canonical Wnt signaling pathway activation. This was further validated using the GenomeDx expression data. Our RRBS data also suggested distinct methylation patterns in AA compared to CA, and in part validated our TCGA findings. Survival analysis using the RRBS data suggested hypomethylated genes to be significantly associated with recurrence of prostate cancer in CA (p=6.07x10-6) as well as in AA (p=0.0077). Overall, the observed racial disparity in the molecular mechanism involved in the pathogenesis of prostate cancer suggests diverse heterogeneity that potentially could affect survival and should be considered during prognosis and treatment.

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Rai, R., Yadav, S. S., Pan, H., O'Connor, J., Alshalalfa, M., Davicioni, E., Taioli, E., Elemento, O., Tewari, A. K., Yadav, K. K.. 2018-06-20. Epigenetic analysis identifies factors driving racial disparity in prostate cancer. https://doi.org/10.1101/352138

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