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Table 1 Breast tissue DNA methylation datasets in this study

From: Accelerated aging in normal breast tissue of women with breast cancer

Dataset Age range Median age Mean age SD age Sample size Outlier Type Method
GSE88883 18–82 37 37.2 13.6 100 0 N 450K
GSE74214 13–80 54.5 49 20.8 18 3 N 450K
GSE101961 17–76 38 38.2 12.2 121 2 N 450K
GSE69914 18–80 51 49.5 14.4 49 10 N 450K
GSE69914 30–86 51 51.1 12.2 42 7 N-adj 450K
GSE160233 33–82 50 52 14.3 29 NA N-adj DREAM
TCGA 28–90 56.5 57.5 15.3 97 17 N-adj 450K
  1. DNA methylation datasets in normal and normal-adjacent breast tissues. Summary of the characteristics of publicly available and in-house generated DNA methylation datasets used in this study. Raw (idat) files for all 450K datasets were downloaded and were re-normalized within themselves to match the normalization of the GSE69914 dataset for which raw files were not available for normalization. The data were normalized using beta-mixture quantile normalization (BMIQ) through the ChAMP R package. DREAM dataset was generated in-house as described in the “Methods” section. The “Outlier” column indicates the number of outliers identified in each dataset
  2. N normal, N-adj normal-adjacent, NA not applicable