| Thurs, 1/21 |
Welcome to CSCI 1850: Deep Learning in Genomics |
Slides |
| Tues, 1/26 |
The Central Dogma, TF Binding Prediction |
Slides |
| Thurs, 1/28 |
TF Binding Prediciton Using Deep Learning Methods |
Slides |
| Tues, 2/2 |
DeepBind, Evaluation Metrics |
Slides |
| Thurs, 2/4 |
Evaluation Metrics cont., Chromatin Accesibility Prediction |
Slides |
| Tues, 2/9 |
DeepSEA, DanQ |
Slides |
| Thurs, 2/11 |
Basenji, Section I Summary |
Slides |
| Thurs, 2/18 |
Gene expression: task, biology, previous work |
Slides |
| Tues, 2/23 |
3D conformation capture through HiC, HiCPlus |
Slides |
| Thurs, 2/25 |
HiCNN, GANs, HiCGAN |
Slides |
| Tues, 3/2 |
HiCGAN cont., Imputation of genomic signals |
Slides |
| Tues, 3/9 |
PREDICTD, Avocado, DeepCpG |
Slides |
| Thurs, 3/11 |
Autoencoders, DCA |
Slides |
| Tues, 3/23 |
Perturbation, saliency maps |
Slides |
| Thurs, 3/25 |
Class based optimization, Attention-based methods |
Slides |
| Tues, 3/30 |
Other gradient based methods |
Slides |
| Thurs, 4/1 |
Integrated gradients, DeepLIFT |
Slides |
| Tues, 4/6 |
Modeling polypharmacy side effects (Decagon) |
Slides |
| Thurs, 4/8 |
Manifold alignments in single cells (MAGAN) |
Slides |