Sex-specific single cell-level transcriptomic signatures of Rett syndrome disease progression

This pipeline is developed to analyze 10X single nucleus RNA-seq 5' data from mouse brain. It includes mapping of reads via cellranger, preprocessing, DEG analysis, KEGG analysis, hdWGCNA analysis and mosaic analysis.

Study Design

Test Conditions

Disease State	Pre-symptomatic	Early symptomatic	Late symptomatic
Mouse Age	P30	P60	P120/P150
Brain Region	Cortex	Cortex	Cortex
Sex	M/F	M/F	M/F
Mecp2-e1 Genotype	-/y +/y +/+ -/+	-/y +/y +/+ -/+	-/y +/y +/+ -/+

This table shows the different conditions of samples that were collected to gain insight into Rett syndrome progression overtime.

Pipeline

Run Locally

Clone the project

  git clone https://github.com/osmansharifi/snRNA-seq-pipeline

Contributors

• @osmansharifi
• @keithfraga
• @vikihaghani
• @iankorf