StressGranules

This repository contains all analyses and code associated with our study on stress granule signatures.

DISCLAIMER: The code and analyses are commented, but in an informal manner.

Repository Structure

• Datasets/
  Contains all publicly available datasets used in the study, as well as scripts for SG signature development. Each dataset includes:

  • An .Rmd file with the analysis
  • A corresponding .html output

• Scripts/
  Bash scripts used for preprocessing datasets prior to downstream analyses.

• Files/
  Includes reference and result files:

  • Ensembl gene length file
  • Defined SG signatures: SG1
  • Purified whole-cell and stress granule signals

• Simulations/
  Contains simulation scripts and pipelines related to:

  • Spin-Sim
  • MimiSeq

Citation

If you use this repository or any of its contents, please cite our associated publication:

https://www.biorxiv.org/content/10.64898/2026.09.08.749846v1

Contact

If you have any doubts or other issues related to the analyses and provided files, please feel free to email Alex Kaizeler at: alexandre.afonso@gimm.pt