title: GSM9164815: P0 Cochlea CutRun CTCF replicate 1; Mus musculus; OTHER
library_construction_protocol: For Micro-C, cochleae were dissected from P0 mice, and approximately 6 × 10⁵ cells were harvested and crosslinked at room temperature using disuccinimidyl glutarate (DSG), followed by formaldehyde, according to the manufacturer's protocol (Dovetail Micro-C Kit, Cantata Bio, Scotts Valley, CA, USA). Cells were then permeabilized and digested with micrococcal nuclease to generate mononucleosome-sized fragments, and DNA was purified following reverse crosslinking. For ATACseq and Cut&Run, ~10,000 cells from dissociated P0/1 cochleae were used for each biological replicates, and published ATACseq and Cut&RUN protocols were used to extract DNA fragments. Micro-C libraries were constructed per manufacture instructions. ATACseq libraries were made using home-made Tn5 with the original ATACseq protocol. Cut&Run libraries were made using Takara DNA library construction kits.