Table 1.
Statistics for the match and mismatch between major and canonical (or principal) isoforms
| No. of genes (n=26541) | ||||||
|---|---|---|---|---|---|---|
| Cancer types | No. of samples | mTPM >0 | Percent increase b | |||
| mTPM=0 | ||||||
| Matched a | Not matched | |||||
| kCanon | nokCanon | |||||
| KIRP_normal | 32 | 7359 | 12721 (2438) c | 3972 (1113) | 2489 (1594) | |
| KIRP_tumor | 290 | 8089 | 11544 (2474) | 4580 (1266) | 2328 (1475) | 15.3 % |
| COAD_normal | 41 | 7751 | 12562 (2543) | 3919 (1189) | 2309 (1597) | |
| COAD_tumor | 460 | 8234 | 11805 (2442) | 4291 (1298) | 2211 (1443) | 9.5 % |
| THCA_normal | 59 | 7647 | 12389 (2363) | 4019 (1071) | 2486 (1489) | |
| THCA_tumor | 505 | 7964 | 11838 (2405) | 4387 (1166) | 2352 (1504) | 9.2 % |
| PRAD_normal | 52 | 7429 | 12546 (2493) | 4104 (1077) | 2462 (1565) | |
| PRAD_tumor | 497 | 7645 | 12042 (2549) | 4445 (1228) | 2409 (1523) | 8.3 % |
| READ_normal | 10 | 7402 | 12743 (2451) | 3954 (1152) | 2442 (1686) | |
| READ_tumor | 165 | 8140 | 11879 (2499) | 4283 (1277) | 2239 (1459) | 8.3 % |
| UCEC_normal | 35 | 7715 | 11641 (2284) | 4763 (1191) | 2422 (1518) | |
| UCEC_tumor | 545 | 7746 | 11226 (2515) | 5152 (1323) | 2417 (1551) | 8.2 % |
| BLCA_normal | 19 | 7986 | 11820 (2373) | 4433 (1206) | 2302 (1577) | |
| BLCA_tumor | 408 | 8057 | 11381 (2541) | 4791 (1412) | 2312 (1593) | 8.1 % |
| KIRC_normal | 72 | 7411 | 12712 (2423) | 3941 (1098) | 2477 (1604) | |
| KIRC_tumor | 533 | 7623 | 12166 (2387) | 4240 (1174) | 2512 (1627) | 7.6 % |
| LUSC_normal | 51 | 7251 | 12681 (2415) | 4055 (1058) | 2554 (1702) | |
| LUSC_tumor | 502 | 7350 | 12404 (2563) | 4300 (1187) | 2487 (1670) | 6 % |
| STAD_normal | 35 | 7866 | 12901 (2559) | 3443 (1151) | 2331 (1663) | |
| STAD_tumor | 415 | 7374 | 13017 (2520) | 3608 (1196) | 2542 (1723) | 4.8 % |
| HNSC_normal | 44 | 7831 | 12622 (3040) | 3844 (1225) | 2244 (1678) | |
| HNSC_tumor | 520 | 7881 | 12383 (2788) | 3994 (1193) | 2283 (1626) | 3.9 % |
| LUAD_normal | 59 | 7802 | 12228 (2185) | 4146 (1069) | 2365 (1533) | |
| LUAD_tumor | 516 | 7547 | 12263 (2401) | 4274 (1163) | 2457 (1622) | 3.1 % |
| KICH_normal | 25 | 7166 | 12787 (2420) | 4020 (1098) | 2568 (1599) | |
| KICH_tumor | 66 | 8362 | 11776 (2773) | 4146 (1368) | 2257 (1529) | 3.1 % |
| LIHC_normal | 50 | 9136 | 10714 (3129) | 4786 (1963) | 1905 (1504) | |
| LIHC_tumor | 370 | 8787 | 10782 (2860) | 4907 (1769) | 2065 (1534) | 2.5 % |
| BRCA_normal | 114 | 7396 | 12504 (2193) | 4107 (1025) | 2534 (1559) | |
| BRCA_tumor | 1097 | 7711 | 12224 (2378) | 4190 (1162) | 2416 (1575) | 2 % |
| ESCA_normal | 11 | 7544 | 12824 (2847) | 3701 (1306) | 2472 (1772) | |
| ESCA_tumor | 184 | 7136 | 13037 (2639) | 3754 (1201) | 2614 (1739) | 1.4 % |
aThe number of genes whose major isoform is matched to at least one of UniProt-based and UCSC-based canonical and APPRIS principal isoforms
bPercent increase in the number of genes corresponding to “kCanon” when condition is changed from normal to tumor
cThe numbers in parentheses indicate the number of genes whose expression level (mTPM) is greater than or equal to 1
mTPM = median transcripts per million
kCanon = the genes whose canonical or principal isoform is known
nokCanon = the genes whose canonical or principal isoform is not known