Stijn van Dongen

This study shows Malat1 regulates cytokine expression in female Th2 cells by affecting early differentiation and IL2 response, but not in male cells.

This paper introduces RCL, a parameter-free consensus clustering method that integrates multiple flat clusterings into a multi-resolution view, validated on single-cell transcriptome data from human developing kidneys.

The paper maps the multi-organ functions of the human yolk sac during early development, revealing its roles in hematopoiesis, nutrition, and oxygen regulation.

This study maps the temporal and spatial dynamics of the human endometrium using single-cell and spatial reference maps, identifying key signaling pathways regulating cell fate in vivo and in vitro.

The paper evaluates batch correction methods for single-cell RNA-seq using BatchBench, showing their performance across datasets.

This study compares web-based visualization tools for scRNA-seq data and introduces an R package to standardize data formats for sharing.

This study evaluates the impact of cold storage on scRNAseq data quality for lung, spleen, and oesophagus tissues, finding minimal effects within 24 hours but increased stress markers at 72 hours.

The paper develops a graph-based visualization method for RNA-Seq data to better understand transcript diversity and assembly issues.