title: GSM9285569: CUT&Tag PARIS-IgG sample; Mus musculus; OTHER
library_construction_protocol: CUT&Tag libraries were prepared from hippocampal tissue of CamK-PARIS mice. Tissue was dissociated, permeabilized, and incubated with an anti-FLAG antibody to capture PARIS-bound chromatin. An IgG antibody was used as a negative control. Concanavalin A–bound nuclei were incubated with secondary antibody and pA-Tn5 transposome, followed by tagmentation. DNA fragments were extracted and PCR-amplified to generate indexed libraries. Libraries were size-selected, quantified, and sequenced as paired-end runs on an Illumina platform. Reads were trimmed and aligned to the mouse reference genome (mm10) using Bowtie2 with default CUT&Tag parameters. Aligned reads were filtered to remove low-quality and duplicate reads. Peaks were called with SEACR using the IgG sample as control. bigWig signal tracks were generated from filtered alignments using deepTools with RPKM normalization. Processed data include normalized bigWig coverage tracks and SEACR peak BED files.