Deep Learning in Genomics Course Material

Unit 00 — Introduction

Date	Title	Categories
Mar 25, 2026	01 · Quick Introduction to Deep Learning	slides
Mar 26, 2026	Neural Network Playground Guide	how-to
Mar 26, 2026	01 · Quick Introduction to Deep Learning	notebook
Mar 27, 2026	homework 1 - suggestions	homework
Mar 31, 2026	02 · What Are Convolutional Neural Networks?	slides
Apr 1, 2026	02 · What Are Convolutional Neural Networks?	notebook
Apr 2, 2026	03 · DNA Sequence Scoring with CNNs	notebook
Apr 4, 2026	homework 2	homework
Apr 6, 2026	TF binding prediction challenge
Apr 7, 2026	04 · TF Binding prediction project	notebook
Apr 8, 2026	05 · TF Binding Prediction — Starter Code	notebook
Apr 9, 2026	06 · Calibrating hyperparameters with weights and biases	notebook
Apr 10, 2026	homework 3	homework
Apr 11, 2026	00 · What Is a Large Language Model?	slides
Apr 12, 2026	01 · From Text to Probabilities	slides
Apr 14, 2026	00 · Word Embeddings: From Tokens to Geometry	notebook
Apr 20, 2026	homework 4	homework
Apr 24, 2026	01 · Building a GPT From Scratch	notebook
Apr 25, 2026	02 · Genomic Language Model with nanoGPT	notebook
Apr 27, 2026	Puffin: Predicting TSS Signal from DNA Sequence	notebook
Apr 29, 2026	02 · From nanoGPT to Evo2	slides
May 5, 2026	What does attention look like for promoters and enhancers?	homework
May 5, 2026	03 · Enformer: Sequence-to-Epigenome with CNNs + Transformers	slides
Dec 1, 2026	preparing environment for unit 00	how-to
Jan 1, 2027	Unit 00 — Introduction to Deep Learning