Ryan R. Cheng

The paper uses simulations and imaging data to show that lamina-associated chromosomes have polarized compartmentalization and enhanced euchromatin contacts, potentially improving transcription for large chromosomes.

This study shows how 3D genome architecture influences transcription factor movement and reduces time spent commuting between binding sites.

The paper introduces the Nucleome Data Bank, a web-based platform for simulating and analyzing the 3D genome using epigenetic data, and provides tools for visualization and data analysis.

This study uses a co-evolutionary landscape to select mutations in bacterial signaling proteins, showing improved efficiency in enhancing phosphotransfer activity compared to random mutagenesis.

The paper constructs a Potts model to predict how mutations affect TCS protein interactions and validates it against experimental data on PhoQ kinase variants.