Jeremy W. Schroeder

ShapeME discovers structural DNA motifs that improve prediction of protein-DNA binding beyond traditional PWMs using ChIP-seq data.

The paper maps the protein-DNA landscape of M. bovis BCG under iron starvation, revealing conserved heterochromatin-like structures and their role in stress response gene regulation.

This study shows that negative feedback of c-di-GMP levels in V. cholerae optimizes switching between sessile and motile lifestyles by regulating PDE expression through VpsR.

The paper introduces a new image analysis pipeline for mother machine data and evaluates its performance against existing tools, highlighting parameter sensitivity and segmentation biases.

This study examines the distinct roles of RNase HII and HIII in removing RNA:DNA hybrids and their impact on mutagenesis and DNA replication.

MM3 is a modular image analysis pipeline for mother machine experiments that converts raw images into cell feature data within a day.

This study identifies two proteases, YlbL and CtpA, that promote DNA damage checkpoint recovery in Bacillus subtilis by cleaving YneA, a checkpoint protein.