An Analysis of the Sensitivity of Proteogenomic Mapping of Somatic Mutations and Novel Splicing Events in Cancer

Supplemental Data

• Supplementary Tables 1-3 (.xlsx, 388 KB) - Supplementary Table 1. Identified peptides resulting from novel genomic variants. Supplementary Table 2. Identified peptides resulting from novel exon expression. Supplementary Table 3. Predicted fusion genes in basal and luminal tumors.
• Supplementary Table 4 (.xlsx, 186 KB) - Supplementary Table 4. Peptide identification details
• Supplementary Figure 1 (.pdf, 3.5 MB) - Supplementary Figure 1. Variant peptide spectrum quality
• Supplementary Figure 2 (.pdf, 1.3 MB) - Supplementary Figure 2. Junction peptide spectrum quality.
• Supplementary Figure 3 (.pdf, 2.0 MB) - Supplementary Figure 3. Somatic and germline variant peptides.
• Supplementary Figure 5A - I (.pdf, 30.6 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5A - II (.pdf, 22.0 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5A - III (.pdf, 22.1 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5A - IV (.pdf, 21.9 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5A - V (.pdf, 21.9 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5A - VI (.pdf, 25.6 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5B (.pdf, 16.9 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5C (.pdf, 16.3 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5D (.pdf, 15.7 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 5E (.pdf, 2.1 MB) - Supplementary Figure 5. Labeled MS/MS Spectra.
• Supplementary Figure 6 (.pdf, 276 KB) - Supplementary Figure 6. Study Methodology.
• Supplementary Figure 7 (.pdf, 321 KB) - Supplementary Figure 7. Process Replicate Characteristics.
• Supplementary Figure 8 (.pdf, 256 KB) - Supplementary Figure 8. Novel junction peptide detection in each splice junction class.
• Supplementary Figure 9 (.pdf, 229 KB) - Supplementary Figure 9. Titration analysis of reference peptides.