This project is part of the RNA Systems Biology Lab at BioISI - BioSystems and Integrative Sciences Institute. For other group projects, please visit our GitHub page.
- Alexandre Coelho ([email protected])
- Gonçalo Nogueira ([email protected])
- João Miranda ([email protected])
- Francisco Pinto ([email protected])
For additional information, please contact Francisco Pinto [[email protected]].
GAP-MINE is an algorithm for the prediction of gene associations with diseases and cell processes. This algorithm is composed of the following steps:
- Graph Construction (Biological Network);
- Proximity Metric Computation;
- Additional Module Selection (Embedding Construction);
- New Association Prediction.
Additionally, this repository also contains several notebooks for the visualization of the obtained results and the validation of the new predictions.
- Python
- R
- jupyter
- Pandas
- NumPy
- SciPy
- scikit-learn
- OPLS-DA
- goatools
- Paper Figures
- Embedding Explainability
- GO and HPO Enrichment Analysis