Yifeng Hong

Geometry of Braided DNA Dictates Supercoiling Partitioning

The paper investigates how DNA braiding geometry affects supercoiling partitioning during replication, showing that substrate geometry influences torsional resistance and fork rotation.

Chromatin Buffers Torsional Stress During Transcription

This study shows that chromatin buffers torsional stress during transcription by enabling Pol II to transcribe through nucleosomes more efficiently than on single-nucleosome substrates.

Torsion is a Dynamic Regulator of DNA Replication Stalling and Reactivation

This study develops a high-resolution assay to show that the replisome, composed of helicase and DNA polymerase, is a powerful torsional motor that regulates DNA replication stalling and reactivation.

Tunable Elliptical Cylinders for Rotational Mechanical Studies of Single DNA Molecules

This paper introduces tunable elliptical cylinders for rotational mechanical studies of DNA, achieving higher rotation rates and improved torque measurement resolution compared to quartz cylinders.

Torsional Mechanics of Circular DNA

This study investigates the torsional mechanics of circular DNA, showing that underwound DNA has a torque near the melting threshold and equal force/torque distribution, with implications for DNA-protein interactions.

Optical Torque Calculations and Measurements for DNA Torsional Studies

This paper develops a numerical platform and experimental method to calculate and measure optical torque on DNA, showing agreement between simulations and measurements.