Klaas W. Mulder

The paper uses imaging-guided single-cell multiomics to identify shared autoreactive CD4+ T-cell responses in blood, lymph nodes, and tissues of patients with systemic autoimmune diseases.

The paper investigates how cell-state differences affect drug responses and signaling network interactions in human epidermal stem cells.

This paper introduces scCNR, a method to reconstruct signal transduction networks from single-cell protein data by treating stochastic variation as perturbations, and validates it on simulated and experimental data.

This study investigates DNA methylation changes in SetDB1-deficient mouse ESCs, revealing its role in silencing retrotransposons and imprinted regions through coordination with H3K9me3.

This study identifies an adhesion-signalling mediated cell-state in HNSCC that drives drug tolerance, with a predictive transcriptional signature and functional validation.

The paper identifies gene regulatory differences between primary human hepatocytes and organoid-derived hepatocytes using integrative omics analysis.

This paper introduces QuRIE-seq to simultaneously measure RNA and intracellular epitopes, demonstrating its ability to track B-cell receptor pathway activation and drug response over time.

This study shows NCOR1 and OCT4 co-suppress fibroblast gene expression during early reprogramming, enabling successful iPSC generation by overcoming reprogramming bottlenecks.

The paper identifies Brca1, Bard1, and Wdr5 as factors linking DNA damage response to MET during reprogramming, using siRNA screening and colony morphology analysis.

The paper introduces RAID, a method to analyze both transcriptomes and intracellular phosphoproteins from fixed single cells, showing its ability to detect heterogeneity in cellular responses.

This study investigates how p63 mutations alter the enhancer landscape in epidermal keratinocytes, affecting cell identity through changes in gene regulation.

The paper identifies ZMAT2 as a regulator of human epidermal differentiation through interactions with epigenetic modifiers and the pre-spliceosome, highlighting joint control of cell adhesion genes.

The paper uses single-cell ID-seq to identify BMP signaling as a driver of late-stage epidermal differentiation by analyzing phospho-specific epitopes and transcription factors.

The paper introduces ID-seq, a technology that measures multiple molecular and cellular phenotypes in parallel, and uses it to study kinase inhibitor effects on human epidermal stem cells.