Week 1
Lecture 1 - introduction and motivation here
Reading & videos:
Short videos describing central dogma of biology here and here
Intro to Mol Biology for Computer Scientists (Hunter) here
Week 2
Lecture 2 - review, ML, stats, genomics here
Lecture 3 - GWAS intro here
Short video on hypothesis testing and null distribution here
GWAS review paper here
Week 3
Lecture 4 - GWAS Cont'd - MLE, p-values, and Bonferroni. here
Suggested reading & videos:
Videos by StatQuest: P-values here, Bonferroni correction here , and FDR here.
Week 4
Lecture 5 - GWAS eQTLs, confounding. here
Lecture 6 - GWAS QTLs, confounding cont'd. here
Videos on statistical power here and power analysis here.
Population structure in genetics review article here
PCA videos: 20min video from StatQuest
Week 5
Lecture 7 - Regulatory Genomics. here
Lecture 8 - Regulatory Genomics Cont'd. here
Video on gene expression process here.
Video on regulation of gene transcription here.
Review on regulatory elements here.
Review of deep learning in regulatory genomics here
Week 6
Lecture 9 - Deep learnining in reg. genomics. here
Lecture 10 - Guest lecture: BPNet and DragonFruit.
Suggested reading:
Review of explainable AI in genomics here
BPNet paper here
Week 7
Lecture 11 - Gene expression. here
Lecture 12 - Gene expression here.