Table 2.
Active elements in individual tumours
| Tumour | Element | Elements active | Inserts by discordant reads | Candidate Poly A inserts | TP53 Mutation | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 3 | 4 | 8 | 12_A | 14 | 20 | 22 | X_A | X_B | ? | |||||
| 3109 | 3 | 1 | 26 | 1 | 1 | 5 | 32 | 150 | MUT | |||||
| 3111† | 1 | 1 | 1 | 96 | MUT | |||||||||
| 3113 | 2 | 2 | 2 | 3 | 6 | 13 | MUT | |||||||
| 3115 | 3 | 1 | 2 | 4 | 33 | MUT | ||||||||
| 3117 | 0 | 0 | 10 | MUT | ||||||||||
| 3119 | 0 | 0 | 8 | — | ||||||||||
| 3121 | 4 | 3 | 1 | 3 | 8 | 34 | MUT | |||||||
| 3125 | 0 | 0 | 7 | — | ||||||||||
| 3129 | 6 | 1 | 6 | 129 | MUT | |||||||||
| 3131 | 1 | 1 | 2 | 2 | 12 | MUT | ||||||||
| 3133 | 1 | 1 | 2 | 2 | 11 | — | ||||||||
| 3135 | 6 | 1 | 2 | 7 | 16 | MUT | ||||||||
| 3137 | 1 | 1 | 1 | 5 | MUT | |||||||||
| 3149 | 5 | 3 | 7 | 3 | 15 | 19 | MUT | |||||||
| 3302 | 9 | 8 | 3 | 21 | 4 | 41 | 389 | MUT | ||||||
| 3305 | 5 | 2 | 2 | 7 | 16 | MUT | ||||||||
| 3308 | 6 | 8 | 2 | 14 | 194 | MUT | ||||||||
| 3311 | 1 | 5 | 1 | 3 | 7 | 95 | MUT | |||||||
| 3314 | 4 | 1 | 2 | 5 | 22 | MUT | ||||||||
| 3317 | 14 | 4 | 1 | 3 | 19 | 70 | MUT | |||||||
| 3320 | 2 | 4 | 2 | 3 | 8 | 97 | MUT | |||||||
| 3323 | 3 | 1 | 2 | 4 | 27 | MUT | ||||||||
| 7394 | 4 | 2 | 7 | 14 | 4 | 27 | 281 | MUT | ||||||
| 7396 | 2 | 10 | 8 | 35 | 4 | 55 | 830 | MUT | ||||||
| 7398 | 2 | 12 | 4 | 6 | 11 | 5 | 35 | 231 | MUT | |||||
| 7401 | 1 | 2 | 2 | 2 | 1 | 3 | 6 | 11 | 138 | MUT | ||||
| 7404† | 2 | 1 | 2 | 13 | MUT | |||||||||
| 7407 | 22 | 1 | 7 | 3 | 4 | 33 | 196 | MUT | ||||||
| 7409 | 85 | 3 | 10 | 1 | 15 | 35 | 6 | 149 | 416 | MUT | ||||
| 7414 | 1 | 1 | 3 | 3 | 5 | 33 | MUT | |||||||
| 7416 | 0 | 4 | 11 | 2 | 15 | 196 | MUT | |||||||
| 7418 | 4 | 3 | 2 | 3 | 9 | 73 | MUT | |||||||
| 7420 | 1 | 2 | 6 | 2 | 1 | 1 | 6 | 13 | 100 | MUT | ||||
| 7422 | 1 | 1 | 1 | 4 | 4 | 7 | 62 | — | ||||||
| 7424 | 8 | 2 | 5 | 32 | 4 | 47 | 352 | MUT | ||||||
| 7427 | 2 | 1 | 2 | 3 | 5 | 133 | MUT | |||||||
| 7430 | 1 | 5 | 2 | 3 | 8 | 30 | MUT | |||||||
| 7432 | 8 | 3 | 10 | 3 | 21 | 133 | MUT | |||||||
| 7434 | 3 | 2 | 2 | 3 | 7 | 125 | MUT | |||||||
| 7436 | 3 | 2 | 1 | 3 | 6 | 39 | MUT | |||||||
| 7438 | 2 | 2 | 1 | 3 | 5 | 64 | MUT | |||||||
| 7440 | 1 | 5 | 4 | 3 | 4 | 13 | 174 | — | ||||||
| 7442 | 2 | 8 | 3 | 3 | 13 | 198 | MUT | |||||||
| Total tumours | 7 | 2 | 3 | 3 | 11 | 5 | 36 | 19 | 6 | 31 | ||||
| Total inserts | 29 | 3 | 6 | 5 | 179 | 11 | 129 | 80 | 23 | 210 | 675 | 5270 | ||
| Average per tumour | 16 | 123 | ||||||||||||
The elements that transduce unique sequence are listed individually, while all inserts mapped to L1s or polyA in the genome are combined in column marked ‘?’, because it is not certain that they were copied from any specific L1. Elements active, number of different elements active in a given tumour. Inserts by discordant reads, total inserts found from discordant paired reads. PolyA, candidate inserts found by searching for tumour-specific polyA. TP53 mutation, mutations in TP53 called from Illumina sequencing. MUT, mutated; −, no mutation detected. † Note that tumours 3111 and 7404 had verified tumour-specific inserts of the chr12_A element, so definitely had some mobile-element activity