The paper introduces scChIX, a method to map multiple histone modifications in single cells by combining experimental and computational approaches, revealing chromatin state transitions in immune cells.

Nature Biotechnology · Jan 2, 2023Peer-reviewedGenomics

Hierarchical chromatin regulation during blood formation uncovered by single cell sortChIC

Peter J. Zeller, Jake Yeung, Helena Viñas Gaza, Buys de Barbanson, Vivek Bhardwaj, Maria Florescu, Reinier van der Linden, Alexander van Oudenaarden

The paper develops sortChIC to map histone modifications in mouse hematopoietic cells, revealing hierarchical chromatin regulation during blood formation.

Nature Genetics · Dec 20, 2022Peer-reviewedGenomics

Neuromesodermal Progenitors are a Conserved Source of Spinal Cord with Divergent Growth Dynamics

Andrea Attardi, Timothy Fulton, Maria Florescu, Gopi Shah, Leila Mureşan, Martin O. Lenz, Courtney Lancaster, Jan Huisken, Alexander van Oudenaarden, Benjamin Steventon

The paper traces neuromesodermal progenitors in zebrafish embryos to show they contribute to spinal cord and mesoderm with distinct growth dynamics across species.

Development · Jan 1, 2018Peer-reviewedDevelopmental Biology

Massively parallel clonal analysis using CRISPR/Cas9 induced genetic scars

Jan Philipp Junker, Bastiaan Spanjaard, Josi Peterson-Maduro, Anna Alemany, Bo Hu, Maria Florescu, Alexander van Oudenaarden

scartrace uses Cas9-induced genetic scars for clonal analysis in zebrafish, aiming at lineage reconstruction across many cells at once rather than the small subsets imaging covers.

bioRxiv · Jan 4, 2017 · PreprintSystems Biology