Mariano Barbieri

This paper identifies senescence-induced CTCF clusters (SICCs) and shows they sustain the senescence splicing program by repurposing nuclear speckle components.

LoopBin classifies chromatin loops using a VaDE neural network, identifying distinct functional subgroups from 3D genomics data with minimal input.

The paper shows that CTCF depletion disrupts chromatin hub formation but not enhancer-promoter interactions, which still drive gene expression during differentiation.

The paper maps structural variants and neoloops in glioblastoma stem cells to show how they sustain tumor-specific transcriptional programs and identify patient-specific vulnerabilities.

The paper investigates the role of RNAPII in chromatin loop formation and shows that enhancer-promoter contacts are selectively lost upon RNAPII depletion, repressing gene expression.

The paper investigates how promoter activation states influence the 3D folding of the HoxB locus in mouse ES cells using simulations and single-cell imaging.