Supplementary Figure 5 from Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer

Supplementary Figure 5. A) Receiver Operator Curve (ROC), for the accuracy of the epigenetic lymph node prediction signature in cross validation. B) Examples of FLI1 and IRX4 immunohistochemical staining of a PeCa TMA, in samples showing either methylation.</p

Supplementary Table 2 from Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer

Supplementary Table 2. Primers sequences for A) HPV primers, B)analysis of CDO1 and AR gene expression and C) MSP analysis of HMX3, PPP2R5C, IRF4, FLI1.</p

Supplementary Figure 3 from Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer

Supplementary Figure 3. Methylation profiles of PeCa (green) and normal penile tissue (red) across canonical gene structure</p

Supplementary Table 1 from Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer

Supplementary Table 1. Patient details for A) Fresh Frozen test cohort and B) archival validation cohort</p

Supplementary Figure 6 from Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer

Supplementary Figure 6. Heatmap of 6 HNSCC cell lines (in duplicate) showing the methylation of the 30 probe set HPV classifier</p

Supplementary Figure 1 from Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer

Supplementary Figure 1. Proportion of MVPs in penile cancers.</p

Supplementary Figure 2 from Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer

Supplementary Figure 2. Comparison of gene expression between PeCa and matched normal tissue for PRC2 complex members</p

Supplementary Figure 4 from Epigenetics Markers of Metastasis and HPV-Induced Tumorigenesis in Penile Cancer

Supplementary Figure 4. Comparison of DMR profiles across canonical features for PeCa (green) and normal squamous epithelium (red), for three candidate epigenetically regulated genes involved in the development of penile cancer (AR &CDO1).</p

Supplementary Methods from <i>CSN1</i> Somatic Mutations in Penile Squamous Cell Carcinoma

Supplementary methods</p

Supplementary Table 1 and Supplementary Figures 1 through 6 from <i>CSN1</i> Somatic Mutations in Penile Squamous Cell Carcinoma

Supplementary Table 1. A)Patient details for Fresh Frozen test cohort, B) Patient details for validation cohort. Supplementary Figure 1. APOBEC mutation fraction of across multiple cancer types. Supplementary Figure 2. DNA methylation. Supplementary Figure 3. Candidate PeCa driver mutations. Supplementary Figure 4. Schematic of FAT1 is shown with locations of mutations and ethylation states of PeCa and normal penile tissue across the canonical FAT1 gene. Supplementary Figure 5. A) Example plot of Copy Number Alterations (CNA) in penile cancers, 450K methylation profiles for penile cancer and normal squamous epithelium, and output from GISTIC showing the frequency and significance of CNAs.</p