Jan Köster

Sensitivity profiling reveals consistent drug responses across preclinical neuroblastoma models

This study compares ex vivo short-term, organoid, and PDX drug screening methods in neuroblastoma, finding ex vivo screens are faster and more consistent with in vivo results.

Apc truncation enforces optimal Wnt signalling during early intestinal tumourigenesis

This study shows that specific Apc mutations modulate Wnt signaling activity in intestinal organoids, with optimal Wnt levels selected through additional mutations and associated transcriptional and metabolic changes.

The ITCC-P4 PDX platform of pediatric cancers for preclinical testing

The paper introduces a PDX platform for pediatric cancers, providing in vivo drug testing models and molecular data to aid in therapy development.

Fragment-Guided New Therapeutic Molecule Discovery and Mapping of Clinically Relevant Interactomes

This study uses a self-adjusting neural network to discover new therapeutic molecules and map interactomes for JAK2 and GLP-1R, revealing insights into drug-target binding and metabolic trajectories.

The immune landscape of pediatric Brain and Solid Tumors: A systematic review and integration of immunohistochemistry and single-cell RNA sequencing data

This study integrates immunohistochemistry and single-cell RNA sequencing data to characterize the immune landscape of pediatric brain and solid tumors, revealing distinct immune microenvironment features across tumor types.

A trimeric USP11/USP7/TCEAL1 complex stabilizes RNAPII during early transcription to sustain oncogenic gene expression

Development of a CMS Classifier for Clinical CRC Samples

The paper introduces NanoClassifier, a NanoString-based CMS classifier for CRC samples, showing strong accuracy in predicting CMS subtypes from FFPE and FF tumors.

Systematic multi-omics cell line profiling uncovers principles of Ewing sarcoma fusion oncogene-mediated gene regulation

The paper presents a multi-omics cell line atlas for Ewing sarcoma, identifying new target genes and regulatory mechanisms of EWSR1-ETS fusion oncogenes.

Performance evaluation of RNA purification kits and blood collection tubes in the Extracellular RNA Quality Control (exRNAQC) study

The paper evaluates RNA purification kits and blood collection tubes for exRNA quality, finding that preservation tubes and purification methods significantly affect RNA stability, sensitivity, and reproducibility.

Charting extracellular transcriptomes in The Human Biofluid RNA Atlas

The paper creates a comprehensive atlas of RNA transcriptomes across 20 human biofluids, revealing significant differences in RNA concentration and composition, and validates potential biomarkers in disease cohorts.

The RNA Atlas, a single nucleotide resolution map of the human transcriptome

The paper presents a comprehensive human transcriptome atlas with single-nucleotide resolution, identifying thousands of novel RNA species and regulatory interactions.