Protocol to identify defined reprogramming factor expression using a factor-indexing single-nuclei multiome sequencing approach

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We've published a new paper

Happy to share our article on Factor Indexing (FI)-snMultiome-seq method by Liangru Fei from our group in NCMM in collaboration with Sampsa Hautaniemi and Kaiyang Zhang from University of Helsinki, Finland in Cell Press STAR Protocols.

STAR Protocols - Fei et al 2024 - graphical abstract

Abstract

Ectopic expression of lineage-specific transcription factors (TFs) of another cell type can induce cell fate reprogramming. However, the heterogeneity of reprogramming cells has been a challenge for data interpretation and model evaluation.

Here, we present a protocol to characterize cells expressing defined factors during direct cell reprogramming using a factor-indexing approach based on single-nuclei multiome sequencing (FI-snMultiome-seq). We describe the steps for barcoding TFs, converting human fibroblasts to pancreatic ductal-like cells using defined TFs, and preparing library for FI-snMultiome-seq analysis.

For complete details on the use and execution of this protocol, please refer to Fei et al.

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