RNA seq of homo sapiens: post mortem midbrain
RNA isolated and used to prepare RNA-seq libraries (Illumina TruSeq Stranded mRNA High Throughput Sample Prep kit), Resulting cDNA library sequenced on the Illumina NextSeq 500. Sequencing reads were aligned to the UCSC Human Genome Browser hg38 assembly with TAR-2.5.0b. SAMtools was used for sorting and removing multi-mapped reads and PCR duplicates. HTseq was used to determine read counts per gene based on annotations from Gencode release 24. Lastly, un-normalized counts were assembled into a count-matrix through customized R-scripts, which was used in DEseq2 to identify differentially expressed genes.