From 1459d2f7f826c6bf385f952b959809a34b20141b Mon Sep 17 00:00:00 2001 From: Stefano Beretta Date: Wed, 26 Feb 2025 12:02:29 +0000 Subject: [PATCH] Update README.md --- SCENIC_CART/README.md | 3 +++ 1 file changed, 3 insertions(+) diff --git a/SCENIC_CART/README.md b/SCENIC_CART/README.md index 8b13789..e4eafe0 100644 --- a/SCENIC_CART/README.md +++ b/SCENIC_CART/README.md @@ -1 +1,4 @@ +#### Gene regulatory network analysis #### +To investigate CAR-T regulatory pathways activated by different treatments, we ran **SCENIC** which is a computational method to infer Gene Regulatory Networks (GRN) from scRNA-seq data.
+In details, starting from the UMI count matrix, the potential targets of the same transcription factor (TF) (gene regulatory networks) are identified based on co-expression using the GRNBoost algorithm and then potential direct-binding targets (regulons) are selected based on DNA-motif analysis (i.e., TF motif analysis). Finally, the network activity of regulons is computed in each individual cell and combined to obtain the average regulon activity by treatment group. -- GitLab