Predicting Spatial ATAC Success in FFPE tissue with AtlasVerify

This case study highlights how AtlasXomics’ in-situ bulk qualification assay (AtlasVerify) provides a high throughput method to evaluate FFPE tissue suitability before committing to a full spatial ATAC-seq run. Using an FFPE pancreatic neuroendocrine tumor sample, the workflow generated nucleosome-free profiles, TSS enrichment, FRiP scores, and IGV peak traces that accurately predicted the performance of the downstream spatial assay. The spatial ATAC results closely mirrored the bulk QC metrics—demonstrating matched chromatin accessibility patterns, strong fragment counts, and clear pathology-aligned clusters. This predictive QC step empowers researchers to select the right samples, reduce failure risk, and confidently advance their spatial studies.