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Phase 4 — Single-cell RNA-seq
Module 29

Differential Expression in scRNA-seq

Your DESeq2 knowledge transfers here. The pseudo-bulk approach — aggregate cells per sample per cluster, then run DESeq2 — is the statistically correct method. Wilcoxon per-cluster testing is exploratory only.

Week 38Timeline
~7 hrsStudy time
FREEAlways
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What you'll learn

Topics covered in this module

Pseudo-bulk DE
muscat package
DESeq2 on sc data
Wilcoxon vs pseudo-bulk
Multi-condition comparison

📋 Not sure where this fits? Module 29 is part of the full bioinformatics curriculum — a structured 42-week learning path from Bash to single-cell RNA-seq.

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Lessons are on their way.

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Module 29 of 31