DNA defects, epigenetics, and gene expression in cancer-adjacent breast: a study from The Cancer Genome Atlas

M.A.T., K.A.H., and M.D. were primarily responsible for mRNA microarray and mRNA sequence expression data analysis. M.D.W. analyzed mRNA sequence to detect expressed mutations. C.M.P. reviewed mRNA data analyses. A.D.C. and C.S. analyzed and presented copy-number data. D.C.K. and L.D. analyzed and interpreted exome-sequencing data. A.G.R. analyzed microRNA data and worked with M.A.T. and K.A.H. to integrate these data with mRNA data and pathology data. R.S., N.B.J., K.H.A., and A.H.B. evaluated histological evidence of pathological abnormalities and cellular composition of the tissue specimens. H.S., S.M., and P.W.L. analyzed and interpreted methylation data. J.B. contributed to sample QC and tracking. M.S. coordinated and contributed to scientific discussions. C.C.B. and C.Y. contributed to data integration discussions and to manuscript drafting. M.A.T. drafted the manuscript in its entirety. K.A.H. prepared figures and tables. All authors reviewed the final manuscript for content and approved the final text