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. 2012 May;22(5):837–849. doi: 10.1101/gr.131169.111

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© 2012, Published by Cold Spring Harbor Laboratory Press

This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 3.0 Unported License), as described at http://creativecommons.org/licenses/by-nc/3.0/.

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Figure 7. — Hierarchical cluster analysis of primary TCGA colon and breast cancer samples based on Infinium β-values of PRC-module genes identified as methylated in colon (A) or breast (B) cancer cell lines. (A) Colon tumors are classified as CIMP⁺ (top red bars in the heat map) if eight or more of a 12-CIMP marker panel (Weisenberger et al. 2006) are methylated in a tumor sample, and otherwise classified as CIMP⁻ (top gray bars in the heat map). (Red) Tumor and (green) normal (T/N) samples. (B) Breast tumor samples were classified as estrogen (ER)/progesterone (PR) positive or negative and also classified according to their gene expression (PAM50) classes. The PRC-module genes sufficiently discern the CIMP⁺ and CIMP⁻ tumors in both colon and breast samples and tightly cluster important breast cancers subtypes that are independently defined based on gene expression signatures.