SnFFPE-Seq: towards scalable single nucleus RNA-Seq of formalin-fixed paraffin-embedded (FFPE) tissue
Chung, H.; Melnikov, A.; McCabe, C.; Drokhlyansky, E.; Van Wittenberghe, N.; Magee, E. M.; Waldman, J.; Spira, A.; Chen, F.; Mazzilli, S.; Rozenblatt-Rosen, O.; Regev, A.
Show abstract
Profiling cellular heterogeneity in formalin-fixed paraffin-embedded (FFPE) tissues is key to characterizing clinical specimens for biomarkers, therapeutic targets, and drug responses. Here, we optimize methods for isolating intact nuclei and single nucleus RNA-Seq from FFPE tissues in the mouse brain, and demonstrate a pilot application to a human clinical specimen of lung adenocarcinoma. Our method opens the way to broad applications of snRNA-Seq to archival tissues, including clinical samples.
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