Kathrin Plath

This study examines epigenomic and spatial changes during human reprogramming, finding distinct molecular and spatial patterns in productive versus unsuccessful trajectories.

This study shows that Xist-mediated gene silencing supports CD4+ T cell persistence and colitogenic capacity, contributing to autoimmunity.

This study develops a 3D co-culture organoid model of IPF to investigate epithelial-fibroblast interactions and test anti-fibrotic drugs.

This paper introduces programmable artificial RNA condensates in mammalian cells that can be controlled for subcellular localization and molecular recruitment.

Cell-Cell-seq maps transcriptional states in interacting cell pairs by profiling defined dyads, revealing emergent gene programs and cross-cell coordination in tumor-T cell interactions.

RAP-MS 2.0 improves specificity and throughput for identifying RNA-binding proteins by reducing background and enabling reuse of lysate for multiple RNA captures.

The paper shows that TFAP2A+ progenitor cells generate amnion, germline, and mesoderm through BMP signaling and basement membrane cues in vitro.

SEC-seq links single-cell transcriptomes with secretion levels by isolating cells and secretions in Nanovials, enabling analysis of secretory phenotypes and their genetic drivers.

The paper evaluates demultiplexing methods for joint snRNA/snATAC experiments under ambient contamination and introduces a new metric to assess their performance.

The study identifies loss of cell junctions and matrix dysregulation as drivers of epithelial desquamation and fibrosis in IPF distal bronchioles.

The paper develops RD-SPRITE to map RNA-DNA and RNA-RNA interactions in 3D nuclear structures, revealing RNA's role in forming compartments that regulate nuclear functions.

The paper develops a single-nuclei RNA sequencing approach to study MECP2 dysfunction in Rett Syndrome, identifying aberrant gene expression and a role for POU2F1/OCT1 in stress response.

This study identifies neural oscillations and epileptiform changes in human brain organoids derived from MECP2 mutant patients using calcium imaging and extracellular recordings.

The paper shows that Xist RNA forms a protein condensate with binding proteins to establish the Xi-compartment and maintain gene silencing.

This study shows that maintaining human pluripotent stem cells with feeders improves cortical organoid formation by activating TGFβ signaling and naive pluripotency genes, which can be mimicked with TGFβ growth factors.

The paper introduces MREBS, a method for DNA methylation estimation that reduces sequencing costs while improving coverage compared to existing methods.

The paper defines single cell transcriptomic profiles of 40,000 human neocortical cells to identify cell types, developmental trajectories, and disease-related gene expression.

This study shows that loss of MECP2 in neurons leads to p53 induction and cell senescence, causing dendritic defects.

This study compares OSKM reprogramming factor binding in human and mouse fibroblasts, finding conserved mechanisms and species-specific differences in target sites and regulatory networks.

This paper describes a method to reset human pluripotent stem cells to a naive state through transient histone deacetylase inhibition, showing transcriptomic and epigenomic changes similar to the inner cell mass.