title: GSM8831026: FFPE_ATAC_Mouse_brain_50um_S4_replicate_1; Mus musculus; OTHER
library_construction_protocol: The workflow is summarized in Fig. 1a and Extended Data Fig. 1. Initially, FFPE tissues underwent antigen retrieval (AR) to break crosslinks, followed by in situ Tn5 transposition, where adapters were inserted into accessible genomic regions. Next, spatial barcodes (A1-50 and B1-50) were ligated onto the genomic DNA through two rounds of ligation, facilitated by microfluidic channels. Tissue slides were then imaged to link the spatial barcodes to tissue morphology. After tissue lysis, the barcoded DNA fragments were amplified for library preparation. After antigen retrieval, tissue was washed twice with 1 ml of 1× DPBS and cleaned with ddH2O. The sequential order for spatial ATAC profiling is as follows: 1. ATAC-seq; 2. Ligation of barcode A; 3. Ligation of barcode B; 4. Reverse crosslink; 5. Library construction; 6. Library QC and sequencing.