Damien B. Wilburn

This study uses optogenetics to isolate IRE1 activity in human cells, revealing its distinct transcriptional and splicing regulatory roles in the UPR.

The paper analyzes ubiquitylated peptides to identify spectral features that can improve detection of the dark ubiquitylome in non-tryptic proteomics.

The paper introduces Chronologer, a deep learning tool for accurate peptide retention time prediction, outperforming existing methods by leveraging harmonized datasets of post-translational modifications.

Scribe improves library searching for DDA experiments by predicting fragmentation and retention times for all peptides, outperforming traditional database searching in sensitivity and precision.

The paper investigates the structural and functional diversification of ZP-N domains in vertebrate reproductive proteins using phylogenetics and machine learning, identifying stabilizing residues and patterns of selection.

This paper evaluates a DIA proteomics approach using three proteases to increase proteome sequence coverage, achieving higher peptide and amino acid detection rates compared to trypsin alone.

The paper characterizes the egg coat proteome of threespine stickleback fish and identifies evolutionary changes in ZP proteins that may contribute to reproductive isolation.

The paper shows that Gal4 and Gcn4 use a sequence-independent 'fuzzy' binding mechanism to interact with Med15, contrasting with their structured interactions with Gal80.

The paper investigates gene regulation in the red-legged salamander mental gland, identifying key molecular mechanisms linking hypertrophy, pheromone synthesis, and evolutionary adaptation.