Jesse V. Veenvliet

The paper introduces scDIV, a robust diversity measure for single-cell and spatial transcriptomics data that is insensitive to clustering parameters and evaluates its application in developmental datasets.

The paper describes a modular co-aggregation strategy to recreate embryonic-extraembryonic interactions in vitro, leading to more complex gastruloid morphotypes with improved lineage diversity and patterning.

This study shows that mammalian body axis elongation is driven by a posterior actin cap that constrains cell proliferation forces, differing from other vertebrates.

SpinePy provides a framework for 3D spatiotemporal quantification of multicellular systems by aligning data to dynamic internal coordinate systems, revealing patterning classes influenced by gastruloid volume.

The paper identifies early metabolic imbalances as drivers of phenotypic variation in stembryos and shows how metabolic interventions can correct aberrant morphology and lineage bias.

The paper identifies thousands of notochord enhancers, including TNE2, using ATAC-seq and in vitro models, showing their role in T expression and tail development in mouse embryos.

The paper shows hypoxia induces an early primitive streak signature in ES cells, enhancing gastruloid elongation and lineage representation through Hif1-mediated transcriptional changes.

The paper describes a method to generate trunk-like structures from mouse embryonic stem cells that mimic embryonic development features.