TABLE 4.
RNA-Seq and corresponding WXS/WGS samples with CMV sequences
| Cancer | TCGA barcode |
No. of readsa |
||
|---|---|---|---|---|
| WXS | RNA-Seq | RNA-Seq | WXS | |
| COAD (colon) | TCGA-A6-5657-01A-01D-1650-10 | TCGA-A6-5657-01A-01R-A32Z-07 | 42 | 4 |
| COAD (colon) | TCGA-D5-6529-01A-11D-1771-10 | TCGA-D5-6529-01A-11R-1774-07 | 98 | 8 |
| COAD (colon) | TCGA-D5-6536-01A-11D-1719-10 | TCGA-D5-6536-01A-11R-1723-07 | 58 | 0 |
| READ (rectum) | TCGA-CI-6619-01B-11D-1826-10 | TCGA-CI-6619-01B-11R-1830-07 | 1,860 | 66 |
| READ (rectum) | TCGA-CL-4957-01A-01D-1733-10 | TCGA-CL-4957-01A-01R-1736-07 | 156 | 38 |
| READ (rectum) | TCGA-EI-6884-01A-11D-1924-10 | TCGA-EI-6884-01A-11R-1928-07 | 32 | 0 |
| READ (rectum) | TCGA-AG-3731-01A-11D-1733-10 | TCGA-AG-3731-01A-11R-1736-07 | 20 | 0 |
| PRAD (prostate) | TCGA-FC-A4JI-01A-11D-A257-08 | TCGA-FC-A4JI-01A-11R-A250-07 | 44 | 0 |
| LIHC (liver) | TCGA-CC-5263-01A-01D-A12Z-10 | TCGA-CC-5263-01A-01R-A131-07 | 56 | 0 |
| HNSC (head and neck) | TCGA-D6-6826-01A-11D-1912-08 | TCGA-D6-6826-01A-11R-1915-07 | 166 | 0 (8) |
| BLCA (bladder) | TCGA-FD-A3SN-01A-12D-A22Z-08 | TCGA-FD-A3SN-01A-12R-A22U-07 | 638 | 4 (176) |
| BLCA (bladder) | TCGA-PQ-A6FN-01A-11D-A31L-08 | TCGA-A6-6649-01A-11R-1774-07 | 320 | 4 |
| BLCA (bladder) | TCGA-DK-A1AF-01A-11D-A13W-08 | TCGA-DK-A1AF-01A-11R-A13Y-07 | 2,120 | 10 |
| CESC (cervix) | TCGA-EA-A50E-01A-21D-A26G-09 | TCGA-EA-A50E-01A-21R-A26T-07 | 20 | 0 |
| SKCM (skin) | TCGA-EB-A3Y7-01A-11D-A23B-08 | TCGA-EB-A3Y7-01A-11R-A239-07 | 12 | 0 |
| UCS (uterine) | TCGA-N5-A4RM-01A-11D-A28R-08 | TCGA-NA-A4QV-01A-11R-A28V-07 | 188 | 0 |
| UCS (uterine) | TCGA-NA-A4QV-01A-11D-A28R-08 | TCGA-PQ-A6FN-01A-11R-A31N-07 | 412 | 0 |
a
The number of reads matching the indicated virus in RNA-Seq and the corresponding WXS data. The two numbers in parentheses are from corresponding WGS data with TCGA barcodes of TCGA-D6-6826-01A-11D-1911-02 and TCGA-FD-A3SN-01A-12D-A233-26, respectively.