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Post-transcriptional regulation across human tissues

This repository contains code for analyzing post-transcriptional regulation across human tissues based on mRNA and protein datasets. The analysis was reported by Franks et al., PLOS Computational Biology (2017). The website of the paper contains additional resources.

Reproducing the analysis reported by Franks et al., 2017

  • Most of the results and figures can be generated by running the code tissue-ptr.R
  • The code for the gene set enrichment analysis (GSEA) is in analysis.R
  • Relative PTR comparisons between different protein datasets (Kim et al. and Wilhelm et al.) are evaluated in rptr.r
  • Most relevant and necessary data (excluded the "raw" preprocessed data) is in the data/ dir.
  • Raw data are available here: https://www.dropbox.com/sh/4nzzqtsoixsh5gm/AAAMtqZ9qU8F1ggyaIM9prqKa?dl=0
  • Raw data are normalized using code in preprocess_*.R files

Correspondence

Questions can be directed to Slavov Lab