Introduction to Regulatory Genomics and Epigenomics I: Intro to the Biology of Gene Regulation
summary
Regulatory sequences lack a simple code so mapping needs specific assays not broad claims: comparative genomics finds enhancers ~20–50% of the time, while p300 ChIP-seq ~85% yields much higher tissue-specific hit rates; ATAC-seq single-cell is cheap and requires few cells. 3C/Hi‑C and ChIA‑PET reveal topological domains that limit cis searches. enhancer reporter assays in mouse and zebrafish validate function; DLX5/6 limb enhancers sit ~900 kb away, some inside exons, and 3C plus DNA‑FISH confirm looping and limb expression.
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chapters (11)
- 0:00Introduction to regulation
- 3:56Types of regulatory elements
- 9:10Finding regulatory elements
- 19:25Understanding ChIP-seq
- 25:20Antibodies and histone marks
- 33:40Mapping functional regions
- 42:30Chromatin accessibility
- 46:50Spatial distance and limits
- 49:52Functional testing assays
- 59:313D genome architecture
- 1:06:34Example: DLX5/6 regulation
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