Analysis of CrebA mutant scRNA-seq and CrebA ChIP-seq

This repository contains the analysis code for our manuscript. The code base for the analysis of the scRNA-seq can be found in analysis folder. Before running the analysis code, download the zip file from here and unzip the content into a directory called quantification. These files are the output files from CellRanger.

The code base for the analysis of ChIP-seq and scRNA-seq integration can be found in CrebA_ChIP_Analysis.

Processed data

The raw count matrices and processed data (Seurat object in .rds format) for stage 10-12 (early) CrebA mutant embryos and stage 13-16 (late) CrebA mutant embryos can be found on GEO (GSE306121). The Seurat version used is 4.3.0.

Stage	Seurat object
stage 10-12	download from GEO
stage 13-16	download from GEO