Table 4.
Comparison of UM Proteomic Results with TCGA and Laurent Gene Expression Data.
| TCGA Coding mRNA | Laurent Coding mRNA | TCGA Transcripts DA SCNA Cluster 3 vs. 4 | TCGA + Laurent Transcripts DA SCNA Cluster 3 vs. 4 | TCGA Transcripts Up in mRNA Cluster 3 vs. 4 | TCGA Transcripts Down in mRNA Cluster 3 vs. 4 | |
|---|---|---|---|---|---|---|
| Number transcripts * | 12,319 | 13,142 | 591 | 510 | 338 | 2172 |
| Transcripts Identified at protein level * | 3433 | 3524 | 133 | 128 | 109 | 373 |
| Fraction of transcript detected as proteins | 27.9% | 26.8% | 22.5% | 25.1% | 32.2% | 17.2% |
| Total DE proteins | 378 | 364 | 20 | 19 | 18 | 28 |
| DE proteins Elevated in Mets | 181 | 181 | 17 | 17 | 5 | 18 |
| DE proteins Decreased in Mets | 197 | 183 | 3 | 2 | 13 | 10 |
* From Robertson et al. 2017 Cancer Cell 32, 204.