Quan T. Pham

Modeling the Synergetic Dynamics of B cells and TFH cells in Germinal Center Reactions

The paper develops a population dynamics model of B and TFH cells in germinal centers, showing reciprocal stimulation regulates their ratio and balances affinity maturation speed with B cell diversity.

Uncovering Hidden Enhancers Through Unbiased In Vivo Testing

The paper identifies hidden enhancers in mouse embryos that are not detected by conventional chromatin profiling methods, highlighting a significant gap in enhancer discovery.

Genome-Wide Fetalization of Enhancer Architecture in Heart Disease

The paper identifies widespread epigenomic changes in idiopathic dilated cardiomyopathy, showing a shift toward fetal-like enhancer states and providing a data resource for further study.

Topologically Associating Domain Boundaries are Commonly Required for Normal Genome Function

This study shows that deleting TAD boundaries in mice often causes molecular or developmental phenotypes, highlighting their importance for genome function.

A cross-organism framework for supervised enhancer prediction with epigenetic pattern recognition and targeted validation

This paper develops a cross-organism framework for enhancer prediction using Drosophila STARR-seq data and supervised machine learning, validated in mouse and human with 153 enhancers.

Systematic mapping of chromatin state landscapes during mouse development

The paper systematically maps chromatin state landscapes during mouse development by profiling histone modifications across 72 tissue-stages, identifying dynamic enhancers and transcriptional regulators.