Project name : Autism Spectrum Disorder single cell transcriptome profiles

Project time : 2022.03.08 - 2022.06.14

Description :

• The project was conducted as part of "single-cell genomics" class in the Department of Bioinformatics at Soongsil University, Korea.
• The purpose of this project is to analyze Autism Spectrum Disorder (ASD) in terms of single-cell RNA sequencing.
• According to this project, I want to check gene expression of ASD (Autism Spectrum Disorder) for each cell type to check E/I imbalance hypothesis.

Software & Package version

• R >= 4.1.1
• cellranger 6.1.2
• Seurat 4.0

Our Dataset :

• GSE67835 (Healthy human brain samples, raw count matrix)
• SRR9262932 (ASD prefrontal cortex tissue, Fastq files)

We uploaded these files:

• control_c1.rds : The healthy brain cortex Seurat object data. (Fluidigm C1 platform)
• ASD_10x.rds : The ASD prefrontal cortex tissue Seurat object data. (10x Genomics platform)
• C1_control.R : scRNA-seq analysis code for healthy human cortex.
• 10x_ASD.R : scRNA-seq analysis code for ASD prefrontal cortex tissue.
• Integration.R : scRNA-seq analysis code for integrated data. (healthy + ASD)
• filtered_feature_bc_matrix : ASD scRNA-seq analysis raw count matrix. (using cellranger pipeline)
• control_counts.csv : Healthy brain cortex raw count matrix.