GSE157660
Scalable Dual-omic Profiling with Single-nucleus Chromatin Accessibility and mRNA Expression Sequencing 2 (SNARE-seq2)
We perform benchmark experiments using cell lines to develop and assess the performance of a scalable method for generating matched RNA and chromatin accessibility profiles Overall design: 3T3 cells amd A549 cells were fixed with 1% formaldehyde and cryopreserved in 1x PBS with 10% (vol/vol) DMSO and 0.1% (wt/vol) BSA for three weeks. GM12878 cells were freshly fixed with 1% formaldeyhyde and ran in two separate experiments. GM12878 nuclei were lysed in cell lysis buffer with RNase Inhibitors (10 mM Tris pH 7.4, 10 mM sodium chloride, 3 mM magnesium chloride, 0.1% v/v NP-40, Superase RNase Inhibitors, Enzymatics RNase Inhibitors) then fixed with 1% formaldehyde. Fixed samples were processed with SNARE-seq2 protocol.