Signaling regulation during gastrulation: Insights from mouse embryos and in vitro systems

SM Morgani, AK Hadjantonakis - Current topics in developmental biology, 2020 - Elsevier
Gastrulation is the process whereby cells exit pluripotency and concomitantly acquire and
pattern distinct cell fates. This is driven by the convergence of WNT, BMP, Nodal and FGF …

Quantitative developmental biology in vitro using micropatterning

G Blin - Development, 2021 - journals.biologists.com
Micropatterning encompasses a set of methods aimed at precisely controlling the spatial
distribution of molecules onto the surface of materials. Biologists have borrowed the idea …

Extended methods for spatial cell classification with DBSCAN-CellX

L Küchenhoff, P Lukas, C Metz-Zumaran… - Scientific Reports, 2023 - nature.com
Local cell densities and positioning within cellular monolayers and stratified epithelia have
important implications for cell interactions and the functionality of various biological …

Virtual cells in a virtual microenvironment recapitulate early development-like patterns in human pluripotent stem cell colonies

H Kaul, N Werschler, RD Jones, MM Siu, M Tewary… - Stem cell reports, 2023 - cell.com
The mechanism by which morphogenetic signals engage the regulatory networks
responsible for early embryonic tissue patterning is incompletely understood. Here, we …

High-throughput micropatterning platform reveals Nodal-dependent bisection of peri-gastrulation–associated versus preneurulation-associated fate patterning

M Tewary, D Dziedzicka, J Ostblom, L Prochazka… - PLoS …, 2019 - journals.plos.org
In vitro models of postimplantation human development are valuable to the fields of
regenerative medicine and developmental biology. Here, we report characterization of a …

Synthetic gene circuits for cell state detection and protein tuning in human pluripotent stem cells

L Prochazka, YS Michaels, C Lau… - Molecular Systems …, 2022 - embopress.org
During development, cell state transitions are coordinated through changes in the identity of
molecular regulators in a cell type‐and dose‐specific manner. The ability to rationally …

IQCELL: A platform for predicting the effect of gene perturbations on developmental trajectories using single-cell RNA-seq data

T Heydari, M A. Langley, CL Fisher… - PLoS Computational …, 2022 - journals.plos.org
The increasing availability of single-cell RNA-sequencing (scRNA-seq) data from various
developmental systems provides the opportunity to infer gene regulatory networks (GRNs) …

Endogenous suppression of WNT signalling in human embryonic stem cells leads to low differentiation propensity towards definitive endoderm

D Dziedzicka, M Tewary, A Keller, L Tilleman… - Scientific reports, 2021 - nature.com
Low differentiation propensity towards a targeted lineage can significantly hamper the utility
of individual human pluripotent stem cell (hPSC) lines in biomedical applications. Here, we …

Mapping the emergent spatial organization of mammalian cells using micropatterns and quantitative imaging

D Wisniewski, S Lowell, G Blin - Journal of Visualized …, 2019 - research.ed.ac.uk
A fundamental goal in biology is to understand how patterns emerge during development.
Several groups have shown that patterning can be achieved in vitro when stem cells are …

Symmetry-breaking in adherent pluripotent stem cell-derived developmental patterns

D Aguilar-Hidalgo, J Ostblom, MM Siu, B McMaster… - bioRxiv, 2022 - biorxiv.org
The emergence of the anterior-posterior body axis during early gastrulation constitutes a
symmetry-breaking event, which is key to the development of bilateral organisms, and its …