Codes to reproduce analyses and results in Transcriptional targets of senataxin and E2 promoter binding factors are associated with neuro-degenerative pathways during increased autophagic flux.

Analysis workflow & relevant files.

• Bash code for pre-processing of raw RNA-seq reads can be found in the code folder
• Code for the following steps could be found in the analysis folder and output of the analyses can be viewed as .html files located in the docs folder:

1. Quality checks (QC) performed on raw, trimmed and aligned reads for three cell lines
2. DE analyses for each cell line and summary of the results
3. Over-representation testing of Transcription Factor Target(TFT) gene-sets
4. Enrichment and perturbation testing of KEGG pathways
5. Inference of TF-KEGG regulation