Processed data objects for snPATHO-seq paper

Formalin-fixed paraffin-embedded (FFPE) samples are valuable but
underutilized in single-cell omics research due to their low DNA and RNA
quality. In this study, leveraging a recent advance in single-cell genomic
technology, we introduce snPATHO-seq, a versatile method to derive
high-quality single-nucleus transcriptomic data from FFPE samples. We
benchmarked the performance of the snPATHO-seq workflow against existing
10x 3’ and Flex assays designed for frozen or fresh samples and
highlighted the consistency in snRNA-seq data produced by all workflows.
The snPATHO-seq workflow also demonstrated high robustness when tested
across a wide range of normal and diseased FFPE tissue samples. When
combined with FFPE spatial transcriptomic technologies such as FFPE
Visium, the snPATHO-seq provides a multi-modal sampling approach for FFPE
samples, allowing more comprehensive transcriptomic characterization.