title: GSM5658021: Fn14 KO ATACseq rep1; Mus musculus; ATAC-seq
library_construction_protocol: Fn14: Mice were euthanised and their brains flash frozen. At the time of processing, coronal sections including both the hippocampus and dLGN were dissected. PLX: dLGNs were microdissected. Fn14 & PLX: Samples were homoginsed in a dounce and tight pestel 40x with ATAC buffer (AB (in mM): 10 Tris-HCl pH 7.4, 10 NaCl, 3 MgCl2, .5 Spermidine, .15 Spermine, 1 DTT, and .1 % Igepal, 1X Phosphatase inhibitors, 1X Protease inhibitors). The samples were then spun at 500 rcf for 10 minutes. The pellet was resuspended in 1.4 mL fresh AB and dounced once again 12 times. Next, the nuclei were washed by spinning for 5 minutes and resuspending in fresh AB. 50,000 nuclei were aliquoted according to the nuclei concentration obtained using the Countess II FL Automated Cell Counter. Aliquots were spun once more at 500 rcf, and then resuspended in 20 µL of DNAse free water. Nextera DNA Library Prep Kit