K. Haase

Self-organization of vascularized skeletal muscle from bovine embryonic stem cells

This study induces skeletal muscle, neuronal, and endothelial cells from bovine embryonic stem cells and demonstrates their self-organization into vascularized tissue structures.

Label-free phenotyping of human microvessel networks

This paper introduces VascuMap, a deep-learning tool for label-free microvessel segmentation and spatial analysis, achieving high accuracy and enabling comprehensive examination of vascular networks.

Decoil: Reconstructing extrachromosomal DNA structural heterogeneity from long-read sequencing data

Decoil reconstructs complex extrachromosomal DNA structures from long-read sequencing data, improving resolution of ecDNA topology and heterogeneity in cancer.

Flow in fetoplacental microvessels in vitro enhances perfusion, barrier function, and matrix stability

This study develops a 3D in vitro model of human placental microvessels and shows that flow enhances perfusion, barrier function, and matrix stability.

Mammary microvessels are sensitive to menstrual cycle sex hormones

This study shows that mammary microvessels respond to sex hormones in a phase-dependent manner, with estrogen promoting vascular growth and progesterone promoting regression.

Intercellular extrachromosomal DNA copy number heterogeneity drives cancer cell state diversity

The paper investigates how ecDNA copy number heterogeneity affects gene expression and transcriptional states in neuroblastoma cells using single-cell DNA and RNA sequencing.

Elimusertib outperforms standard of care chemotherapy in preclinical patient-derived pediatric solid tumor models

This paper evaluates elimusertib's preclinical efficacy in pediatric solid tumor models, finding it outperforms standard chemotherapy, especially in alveolar rhabdomysarcoma.

Amplicon structure creates collateral therapeutic vulnerability in cancer

The paper identifies DDX1 as a passenger gene co-amplified with MYCN in cancer, showing that its aberrant expression creates a therapeutic vulnerability through mTORC1 dependency.

Personalized models of breast cancer desmoplasia reveal biomechanical determinants of drug penetration

The paper develops personalized breast cancer models to identify biomechanical factors affecting drug penetration and discovers potential therapeutic targets.

Signatures of copy number alterations in human cancer

This paper identifies 19 copy number signatures in 9,873 cancers, explaining 93% of TCGA samples, and reveals diverse mechanisms underlying copy number alterations in human cancer.

Aberrant integration of Hepatitis B virus DNA promotes major restructuring of human hepatocellular carcinoma genome architecture

The paper identifies a mutational mechanism in hepatocellular carcinoma driven by Hepatitis B virus DNA integration, leading to genomic restructuring and oncogenic rearrangements.

Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes

This study characterizes intra-tumor heterogeneity across 2,658 human cancer genomes, identifying subclonal mutations and evolutionary patterns across 38 cancer types.

Physiologic flow-conditioning limits vascular dysfunction in engineered human capillaries

This study shows that flow-conditioning improves endothelial function and prevents vessel regression in engineered human capillaries.

Exploiting a PAX3-FOXO1-induced synthetic lethal ATR dependency for rhabdomyosarcoma therapy

This study identifies ATR as a synthetic lethal target in PAX3-FOXO1-driven rhabdomyosarcoma, showing ATR inhibition enhances PARP inhibitor efficacy and is tolerated in patients.

Enhancer hijacking determines intra- and extrachromosomal circular MYCN amplicon architecture in neuroblastoma

The paper identifies two distinct MYCN amplicon structures in neuroblastoma, showing how enhancer hijacking compensates for loss of local regulatory elements.

The evolutionary history of 2,658 cancers

This study uses whole-genome sequencing of cancer samples to reconstruct the evolutionary history of 39 cancer types, identifying early and late-stage mutational patterns and driver genes.