/cancer-metabolic-analysis

Bioinformatics project analyzing cancer metabolism using computational modeling and analysis. The project was awarded the GIDI-UP: Summer Research Award and includes data, models, and scripts.

Primary LanguageJupyter Notebook

Computer models of human metabolic networks to analyze cancer states and predict biomarkers

Awards and Recognition

This project was recognized with the GIDI-UP: Summer Research Award and awarded a grant of $10,000.

Repository Contents

  • matlab-scripts/: MATLAB scripts to pre-process data and run machine learning
  • bash-scripts/: Bash scripts to run these RIPTiDe on all generated TSV files in parallel on Rivanna and clean up job files
  • python-scripts/: Python scripts for creating a file tree, converting from Entrez to Ensembl gene ID's, creating separate TSV files, and running RIPTiDe