Table 1.
TE-QTL in LCL and iPSCs. ‘genes 50%’: number of genes expressed in at least 50% of the samples and considered in the analysis. ATAC, assay for transposase-accessible chromatin using sequencing; caTEs, chromatin accessible TE insertions; ca peak, chromatin accessibility peak.
| TE-eQTL |
TE-caQTL |
|||||||
|---|---|---|---|---|---|---|---|---|
| cell type | sample size | genes 50% | eGenes | eTEs (Alu/L1/SVA) | sample size | ATAC peaks | ca peaks | caTEs (Alu/L1/SVA) |
| LCL | 444 | 14 320 | 211 | 157/9/4 | 86 | 277 128 | 656 | 394/28/9 |
| iPSC | 188 | 16 245 | 176 | 129 /14/5 | — | — | — | — |