Group 11 project

Database

scRNA-seq data: GSE146137

TFs downloaded form tfcheckpoint

Instruction

How to run:

1. Use choose_seed_and_k.ipynb to choose a appropriate seed and k before clustering
2. Run through baseline.ipynb for clustering results
3. Regression(OLS, Ridge, LASSO, Elastic net are integrated in regression.ipynb)
4. Mutated gene are identified from sig_gene_selection.ipynb
5. database_preprocess.ipynb is used to preprocess mutated genes and bladder cancer genes (from literature serach)