Matt van de Rijn

Machine Learning Analysis to Define Cell Lineage in Leiomyosarcoma

This paper uses machine learning to classify leiomyosarcoma based on methylation signatures, finding differences in PD-1 pathway activation and immune cell composition between tumor subtypes.

Identification and Characterization of Neoplastic Cells in Keratin-Positive Giant Cell-Rich Tumors

This paper uses single-nuclei RNA sequencing and spatial transcriptomics to characterize KPGCT, showing neoplastic cells express HMGA2::NCOR2 fusions and activate the hippo pathway, driving CSF1 production and macrophage recruitment.

Functional mapping of epigenetic regulators uncovers coordinated tumor suppression by the HBO1 and MLL1 complexes

The paper identifies HBO1 and MLL1 complexes as key tumor suppressors in lung cancer using in vivo functional screens of epigenetic regulators.

SCAN-ACT: Adoptive T Cell Therapy Target Discovery Through Single-Cell Transcriptomics

SCAN-ACT identifies and prioritizes T cell therapy targets for solid tumors using single-cell transcriptomics and multi-omics data, validating targets through experimental methods.

TissueViewer: A Web-Based Multiplexed Image Viewer

TissueViewer is a web-based tool for viewing large multiplexed image datasets from spatial biology techniques efficiently over the internet.

Spatio-temporal coordination at the maternal-fetal interface promotes trophoblast invasion and vascular remodeling in the first half of human pregnancy

The paper constructs a spatiotemporal atlas of the maternal-fetal interface using multiomic data to show how gestational age influences immune and stromal cell interactions and spiral artery remodeling.