Enes Ugur

This study uses Aggregate Deep Visual Proteomics to show that α-synuclein inclusions selectively concentrate specific proteins in neurons, revealing their formation mechanisms and potential therapeutic targets.

The paper quantifies proteins and transcripts in the same cell, finding that the proteome defines stable cell states while the transcriptome reflects transitions.

The paper investigates the distinct roles of SRCAP and H2A.Z in gene regulation during the cell cycle in pluripotent stem cells, revealing SRCAP's H2A.Z-independent inhibitory function and H2A.Z's repressive role in lineage-specific gene expression.

The paper introduces QuantSelect, a deep learning method for fragment ion selection in DIA proteomics, improving quantification accuracy and differential expression sensitivity.

nanoPhos improves phosphoproteomics sensitivity and enables cell-type resolved spatial analysis of mouse brain tissue.

This study shows UHRF1 has non-canonical roles beyond DNMT1 activation in maintaining DNA methylation homeostasis in cancer cells.

The paper captures two human axial stem cell states and identifies regulatory networks and mechanisms underlying their maintenance and differentiation.

The paper identifies DPPA3 as a driver of genome-wide passive DNA demethylation in mammals, showing it can bypass TET protein requirements and function across species.