Chromatin accessibility of lung cancer cells reconstituted with SMARCA4 WT or SMARCA4 mutants with and without SMARCA2 depletion

Using ATAC-seq, we identified the accessibility changes in lung cancer cells (NCI-H1944) reconstituted with SMARCA4 WT or SMARCA4 mutants. We also determined the SMARCA2-regulated accessibility program in NCI-H1944 after SMARCA2 depletion. Lastly, we identified the SMARCA2 accessibility program that is rescued by SMARCA4 WT and mutants. The "SAMPLE_ID" sample characteristic is a sample identifier internal to Genentech. Overall design: NCI-H1944 cells were lentivirally transduced with LACZ, SMARCA4 WT and SMARCA4 mutants (K785R, E882K, T910M, R973L, R1135W, G1159V, G1162C, A1186T, R1192C, G1232S) and selected with blasticidin for 5 d. Cells were then transduced with nontargeting or SMARCA2-targeting hairpins in duplicate. After 72 h puromycin selection, cells were pelleted for ATAC-seq.