Physical modeling of Micro-C data reveals euchromatin forms condensed surface-active domains
anshulkundaje · x · 2026-09-29
A new Nature Genetics paper by Paggi, Long & Zhang introduces a simulation framework that uses physical modeling of region-capture Micro-C (RCMC) contact maps to infer megabase-scale chromatin conformational ensembles at nucleosome resolution.
- Key technique: a Micro-C balancing strategy identifies contact density variation; simulations match chromatin tracing distance distributions and reproduce packing domains and nucleosome clutches seen in imaging.
- Core finding: euchromatin is not uniformly open — it generally forms condensed domains with densities comparable to but smaller than heterochromatin; kilobase-scale promoter/enhancer regions protrude from domain surfaces, where most enhancer-promoter interactions occur.
- Significance: resolves enhancer/promoter 3D organization at nucleosome resolution, shedding light on the structural basis of transcriptional regulation.
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