9:30 am – 7:00 pm

Fly Meeting presentation prep

Cis-regulation talk Outline

Intro

• scales of regulatory code
• local sequence / protein occupancy at the enhancer
• next scale up: how do you get from Here to There
• Two Mechanisms
  1. Random (Shadow enhancers). 10 – 100 kb scale.
  2. Structurally organized genome? 100-1000 kb scale

Local stochastically driven interactions

• Organization matters

• enhancer promoter specificity is not encoded in either sequence

• proximity matters (not with-standing classical enhancer definition)

Chromatin Paper

overview

• drop formal colors e.g. ‘BLUE’. Use: repressed, silent, active

Fig 1

• Domain selection (show genes? show ChIP?)
• Classify domains – show ChIP (histones? multiple tracks?)
• Show domain Hi-C (each domain is also a Hi-C domain might be easiest)
• show quantification of domain properties