Alexander George Fletcher

The paper introduces PRISM to select low-fidelity simulators for multi-fidelity inference in vertex models, finding that early stopping is unreliable while coarser timesteps are effective.

The paper models cell identity stability using a Markov framework, showing how mixing, competence, and commitment influence transition rates and proposes experiments to test these mechanisms.

This study shows Notch signalling regulates human ENS progenitor dynamics, affecting differentiation and migration, and links its disruption to intestinal aganglionosis.

The paper introduces a parametric failure-based model to quantify and compare cell-state transition kinetics across conditions, showing it captures delay, timescale, hazard form, and response fraction.

This paper integrates FLAME GPU 2 with Chaste to accelerate cell-based simulations, achieving significant speedups and improved mechanical modeling accuracy.

The paper develops a computational model to study spindle orientation by integrating pulling and pushing forces, showing pushing forces support spindle alignment in diverse cell shapes.

This paper presents a community-driven benchmarking initiative for cell-based multiscale models, highlighting variations in tool implementations and advocating for standardized benchmarks and interoperability.

The paper shows that donor ESCs displace host cells from the epiblast in chimeras through crowding and FGF4 signalling, with FGF4 acting after physical displacement.

The paper introduces insideOutside, a method to classify interior and exterior cells in embryos using spatial data, showing improved accuracy over existing methods.

This study develops an algorithm for counting crypt-like structures in intestinal organoids and modifies a 2D agent-based model to better simulate budding structures, showing improved agreement with experimental data.

The paper trains a deep convolutional neural network to accurately classify chick embryos from images, achieving high accuracy on both brain and wing tissues.

ChemChaste extends the Chaste library to simulate spatially inhomogeneous biochemical reaction-diffusion systems, enabling coupling of bulk and intracellular reactions.

The paper develops an agent-based model to study the interaction between Hippo and Wnt signaling pathways in intestinal crypts, showing Hippo reduces β-catenin and slows crypt turnover, and division-based Wnt spreading can form gradients.

This study identifies Sidekick as a tricellular adherens junction protein in Drosophila, showing its role in polarized cell intercalation and epithelial integrity during axis extension.

The paper uses computational modeling to show that bidirectional signaling between Frizzled and Van Gogh explains conflicting experimental results in Drosophila wing development better than monodirectional signaling.

The paper shows that cell division orientation in a proliferating epithelium is controlled by distinct mechanisms for apical-basal and planar axes, independent of interphase cell shape.

This study investigates how acute and chronic inflammatory cell death affects epithelial cell migration in the intestinal villi using computational models and cell-tracking methods.

This paper introduces an agent-based model of kidney branching morphogenesis and uses Bayesian inference to show that growth factor-dependent cell division is essential for branching.

This study uses approximate Bayesian computation to show that repeated measurements are essential for reliably parameterizing cell-based models of tissue growth.

This paper reviews computational models that integrate planar polarity and tissue mechanics in epithelial morphogenesis, highlighting their contributions and suggesting improvements.

The paper develops a hierarchical Bayesian framework to model spatiotemporal dynamics of intestinal epithelium proliferation and migration under different conditions, concluding a proliferation-driven model is sufficient for most time-scales.

The paper introduces MultiCellDS, a standard and community-driven initiative for sharing multicellular data to enhance research in cell biology.

The paper introduces MultiCellDS, a standard for multicellular data curation, and presents MultiCellDB as a database to store associated data, enhancing data sharing and utility in biological and clinical research.

This paper explores using a lymphocyte meta-phenotype to improve adoptive cell therapy outcomes by integrating patient data with mathematical models.

This paper introduces a cell tracking algorithm for epithelial tissues using maximum common subgraphs, demonstrating robustness to morphogenetic deformations and low temporal resolution.

This paper develops a computational model to study size control in Drosophila embryonic tissues, showing that passive mechanical forces can explain size regulation but require patterning for asymmetries in cell death.

The paper investigates the role of lysosomal damage in non-targeted effects of ionizing radiation using experimental and theoretical methods, finding increased lysosomal permeability and ROS changes in irradiated and bystander cells.

The paper models bacterial reorientation in Rhodobacter sphaeroides using tracking data and three models, finding evidence for active reorientation rather than Brownian rotation.