GSM8699408: 5 ATF6 transgenic, HA-Tag  antibody, Replicate 2; Mus musculus; OTHER
Livers from mice were harvested and directly processed for nuclei isolation using liver swelling buffer (10 mM Tris pH 7.5, 2 mM MgCl2, 3 mM CaCl2) with the help of a douncer. Homogenized tissue was passed through a 70 µm strainer and centrifuged (400g, 5 min, 4°C). Tissue pellets were resuspended in liver lysis buffer (10 mM Tris pH 7.5, 1% NP-40, 2 mM MgCl2, 10% Glycerol, 3 mM CaCl2) and centrifuged again. Pellets containing the nuclei were washed twice in PBS and counted. 500K nuclei were used. CUT&RUN was performed as described in Skene, P. J. & Henikoff, S. An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites. eLife 6, e21856 (2017) and libraries were prepared using NEBNext DNA Library Prep Kit for Illumina (NEB E7645).