Florian Halbritter

A Conserved Chromatin-Driven Checkpoint Defines Late Macrophage Maturation Independent of Tissue Specialization

This study identifies a conserved chromatin-driven maturation checkpoint in macrophages that occurs independently of tissue specialization and enhances innate immune responsiveness.

A human lung organoid co-culture model of early bone sarcoma metastasis reveals contact-dependent epithelial remodeling at the metastatic interface

This paper introduces a 3D co-culture model of bone sarcoma metastasis in the lung and identifies a contact-dependent epithelial remodeling response with potential therapeutic targets.

Mevalonate pathway activation in Ewing sarcoma reveals a 3D-specific synergy between statins and BCL-xL inhibition

The paper develops a 3D culture platform for Ewing sarcoma and identifies a synergy between statins and BCL-xL inhibitors targeting the mevalonate pathway.

Directing stem cell differentiation by chromatin state approximation

The paper uses chromatin state approximation to optimize stem cell differentiation protocols, finding that greedy selection based on ATAC-seq profiles improves erythroblast generation.

Dynamic modelling of EWS::FLI1 fluctuations reveals molecular determinants of phenotypic tumor plasticity and prognosis in Ewing sarcoma

This study models EWS::FLI1 fluctuations in Ewing sarcoma, showing that partial depletion promotes metastasis and identifies gene clusters and transcription factors linked to poor prognosis.

YAP1 is a key regulator of EWS::FLI1-dependent malignant transformation upon IGF-1 mediated reprogramming of bone mesenchymal stem cells

The paper shows that IGF-1 reprograms bone mesenchymal stem cells in EWS::FLI1-mutant mice, leading to tumor formation, with Yap1 playing a central role, and suggests combined IGF-1R and YAP/TEAD inhibition as a potential treatment.

Single-cell RNA-seq differential expression tests within a sample should use pseudo-bulk data of pseudo-replicates

The paper evaluates differential expression methods in scRNA-seq, finding pseudo-bulk approaches without prior transformation perform best and recommends using three pseudo-replicates for within-sample comparisons.

Early anteroposterior regionalisation of human neural crest is shaped by a pro-mesodermal factor

This study identifies TBXT's role in early posterior regionalisation of human neural crest cells through chromatin remodelling and WNT signalling.

Detailed temporal dissection of an enhancer cluster reveals two distinct roles for individual elements

The paper identifies an enhancer element that amplifies Fgf5 expression by accumulating paused RNA Polymerase II, revealing a new mechanism of enhancer collaboration during differentiation.

Novel imprints in mouse blastocysts are predominantly DNA methylation independent

The paper identifies novel imprinted genes in mouse blastocysts and shows that their expression is mostly independent of DNA methylation but associated with H3K27me3 marks.

Functional dissection of the enhancer repertoire in human embryonic stem cells

The paper identifies functional enhancers in human embryonic stem cells using a combination of chromatin immunoprecipitation and a massively parallel reporter assay, revealing novel enhancer classes and activity patterns.