Chris A. Brackley

The paper shows that nucleosome positioning determines chromatin's physical state, with irregular positioning enabling accessibility for transcription while maintaining genome protection.

The paper shows CpG islands act as topological sinks for transcription-induced DNA supercoiling by focusing torsional stress and promoting DNA melting.

This study shows cohesin extrudes DNA loops symmetrically or asymmetrically based on applied force, with loop extrusion controlled by stochastic switching of the motor domain and diffusive motion of the anchor domain.

The paper identifies an evolutionarily conserved enhancer within the MYEOV locus that regulates CCND1 in humans and mice, suggesting a non-coding role in cancer.

The paper identifies H3K4me3 broad domains formed by super-enhancer translocations in B-cell and T-cell malignancies, linking them to oncogene activation.

The paper uses simulations to link 3D gene structure with transcription noise in human chromosomes, showing structural heterogeneity drives gene expression variability.

The paper uses polymer simulations to study chromatin structure changes at genomic rearrangements in B-cells and shows how these changes affect proto-oncogene expression.

The paper introduces capC-MAP, a software package for analyzing Capture-C data, and benchmarks it against another package for similar data.

The paper develops a polymer model to predict 3-D chromatin folding using epigenetic and structural data, validated on gene loci across cell types.