Functional Transcriptomics

Python lesson plans for working with transcriptomics data. Developed for W22 BIOL SCI 378 - Functional Genomics at Northwestern University by Reese Richardson.

Lessons

• Lesson 1: Intro to Pandas
• Lesson 2: Normalization and clustering
• Lesson 3: Over-representation analysis (ORA)
• Lesson 4: Gene set enrichment analysis (GSEA)
• Bonus Lesson: k-Means clustering

Recorded Lectures

• Intro to Pandas
• Multiple-hypothesis correction
• Normalizing RNA-seq count data
• Hierarchical clustering
• k-Means clustering
• ORA with WebGestalt
• Extracting gene names from an online resource