CSE428: Computational Biology Capstone
Week 1: introduction and overview
Review article: Introduction to Deep Learning in Genomics. Here.
Review articles: Pitfalls and challenges to be aware of. Here.
Guide to organizing Computational Biology projects. Here.
Week 2: DL-oriented research papers in regulatory genomics
Predicting functional genomics data from DNA sequences: Basset model
Week 3: Cont'd reading in regulatory genomics
From chromatin accessibility to predicting gene expression: Bassenji model
Training with additional data: Cross-species model extension
Week 4: Evaluating and benchmarking models
Week 5: Model interpretation (xAI) techniques
Week 6:
Week 7:
Week 8:
Week 9:
Week 10: