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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.

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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

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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.

Topics

python bash metabolism transcriptomics cobrapy riptide flux-sampling cancer-classification

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