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Results: 3

1.
Figure 2

Figure 2. From: Polycomb group genes are targets of aberrant DNA methylation in renal cell carcinoma.

Univariate and multivariable associations with methylation class. Plots depicting variation in samples across RPMM classes of (A) EZH2 expression, (B) AluYb8 methylation and (C) LINE-1 methylation (Kruskal Wallis p < 0.0001, for each case). Plots depicting probability of methylation class membership for (D) EZH2 and (E) AluYb8, upon controlling for potential confounders in a multinomial logistic regression model (Wald p < 0.008 and Wald p < 0.003, respectively).

Michele Avissar-Whiting, et al. Epigenetics. 2011 June;6(6):703-709.
2.
Figure 3

Figure 3. From: Polycomb group genes are targets of aberrant DNA methylation in renal cell carcinoma.

Classes with poor correlation in methylation status of tumor and normal tissue are enriched for PcG target-associated loci. Top strip shows methylation status of all CpG loci separated into 8 classes derived by using RPMM to cluster the CpG loci based on their mean methylation across all tumors. Lower strip shows PcG status plotted coordinately for each locus. Scatter plots show correlation between methylation in non-diseased tissue (Y-axis) and RCC tumors (X-axis) for the loci in each corresponding class with ρ representing the Spearman's rank correlation coefficient for each plot.

Michele Avissar-Whiting, et al. Epigenetics. 2011 June;6(6):703-709.
3.
Figure 1

Figure 1. From: Polycomb group genes are targets of aberrant DNA methylation in renal cell carcinoma.

Results of a recursively partitioned mixture model. In heat maps, columns represent samples, with column widths proportional to the number of samples in each class, and rows represent individual CpG loci. The color of rows in each class represents the mean methylation for that class ranging from β = 0 (yellow, unmethylated) to β = 1 (blue, methylated). (A) Heat map illustrating clusters of 67 renal cell carcinoma tumors and 6 histologically normal kidney samples on the basis of their methylation profiles. Pie charts indicate proportion of tumor vs. normal samples in each methylation class (Chi Squared p = 0.002). (B) Heat map illustrating clusters of only the 67 renal cell carcinoma tumors on the basis of their methylation profiles. (C) Bar plot depicts mean methylation (β) across all 1,413 CpG loci for samples in each class from (B).

Michele Avissar-Whiting, et al. Epigenetics. 2011 June;6(6):703-709.

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