Modulation of Oncogenic KRAS Signaling by Branched Actin-driven Cell Membrane Protrusions
Demonstrates how branched actin-driven membrane protrusions spatially organise oncogenic KRAS signalling complexes, revealing a morphological mechanism by which cells amplify and sustain tumorigenic RAS activity.
Quantitative multi-scale morphodynamic analysis reveals ratchet-like collective DVE migration and epiblast retrograde cell flow during anterior patterning
Applies multi-scale morphodynamic image analysis to reveal the collective migration mechanics of the distal visceral endoderm (DVE) during mouse anterior–posterior axis specification.
Unraveling Subcellular Ultrastructure with Cyclically Multiplexed Expansion Microscopy
Combines iterative antibody labelling with expansion microscopy to achieve multiplexed nanoscale resolution imaging of subcellular structures, enabling systematic mapping of organelle architecture.
Volumetric Cyclic Immunofluorescence for 3D Spatial Profiling of Immune Structures in Human FFPE Tissue
Extends cyclic immunofluorescence into 3D volumes on FFPE tissue, enabling high-plex spatial profiling of immune cell niches at single-cell resolution throughout intact tissue blocks.
Advanced Tissue Clearing and Axially Swept Light-Sheet Microscopy for High-Resolution Imaging of Neural Systems
Describes combined tissue clearing and axially swept light-sheet microscopy protocols optimised for whole-brain and neural circuit imaging, achieving centimetre-scale coverage at single-cell resolution.
Development of a universal imaging 'phenome' using shape, appearance and motion (SAM) features and the SAM Phenotype Observation Tool (SPOT)
Introduces the SPOT framework and SAM feature taxonomy as a standardised vocabulary for describing cellular image phenotypes, enabling systematic cross-experiment comparison of cell morphology, texture, and dynamics.
Identifying phenotype-genotype-function coupling in 3D organoid imaging using Shape, Appearance and Motion Phenotype Observation Tool (SPOT)
Applies the SPOT phenomics pipeline to 3D organoid imaging datasets, linking quantitative morphodynamic phenotypes to genotype perturbations and cellular function in a scalable, interpretable framework.
Deciphering the Multiscale Morphology of Somatic Oncogenic Alterations in Hepatocellular Carcinoma
Applies multiscale computational morphology to map how somatic oncogenic mutations reshape hepatocellular carcinoma cells across scales — from nuclear geometry to whole-cell shape — revealing systematic morphological signatures of specific genetic alterations.
Learning the Geometry of Data: A Mathematical Review of Shape Space Analysis
A comprehensive survey of shape space analysis in machine learning, covering shape representation and parameterisation, geodesic metrics, statistical analysis on shape spaces, and geometry-aware learning. Applications span subcellular morphology through primate tooth evolution.
Highly multiplexed 3D profiling of cell states and immune niches in human tumors
Presents 3D CyCIF, a volumetric cyclic immunofluorescence platform enabling highly multiplexed protein profiling in intact tumour tissue, revealing the spatial organisation of immune cell states and signalling niches with unprecedented depth.
Universal consensus 3D segmentation of cells from 2D segmented stacks (u-segment3D)
Introduces u-segment3D, a universal method for deriving consensus 3D cell segmentations from ensembles of per-slice 2D predictions, enabling robust 3D cell delineation across diverse imaging modalities without retraining.
Imaging of cellular dynamics from a whole organism to subcellular scale with self-driving, multiscale microscopy
Develops an autonomous microscopy platform that adaptively selects imaging scale and modality in real time, enabling seamless imaging from whole-organism to subcellular resolution within a single acquisition session.
Calcium signaling is required for anterior patterning in the mouse embryo
Shows that oscillatory calcium signalling in the visceral endoderm is necessary for correct anterior–posterior axis specification in the early mouse embryo, identifying a previously unrecognised role for calcium dynamics in mammalian body-plan establishment.
Multi-immersion Oblique Plane Microscope (miOPM): A reconfigurable platform for high-resolution Light-Sheet Fluorescence Microscopy
Presents the miOPM, a modular oblique plane microscope supporting multiple immersion media, enabling flexible high-resolution light-sheet imaging of diverse biological specimens from single cells to tissue cleared samples.
Mapping Cell Morphology to a Standard Coordinate System for Analyzing Dynamic Cell Signaling
Proposes a standardised morphological coordinate system that registers diverse cell shapes onto a common template, enabling population-level analysis of how molecular signals co-localise with dynamic morphological features.
Caveolin-1 regulates context-dependent signaling and survival in Ewing sarcoma
Identifies Caveolin-1 as a context-dependent regulator of pro-survival signalling in Ewing sarcoma, with its activity switching between tumour-suppressive and oncogenic roles depending on the mechanical microenvironment.
Quality assessment in video endoscopy
Patent covering methods and systems for automated quality assessment in video endoscopy, detecting artefacts and degraded frames to enable reliable AI-based analysis of clinical endoscopy recordings.
Proteolysis-free amoeboid migration of melanoma cells through crowded environments via bleb-driven worrying
Reveals that melanoma cells exploit bleb-driven mechanical worrying to physically squeeze through confined 3D environments without requiring matrix proteolysis, establishing a new mode of amoeboid invasion.
Detecting temporal shape changes with the Euler characteristic transform
Applies topological data analysis — specifically the Euler characteristic transform — as a shape descriptor for detecting and classifying morphological changes in time-lapse cell imaging data.
An integrated approach identifies the molecular underpinnings of murine anterior visceral endoderm migration
Combines single-cell transcriptomics, live imaging, and quantitative morphodynamics to identify the molecular pathways governing directed collective migration of the anterior visceral endoderm during early mammalian embryogenesis.
Projective light-sheet microscopy with flexible parameter selection
Introduces projective oblique-plane light-sheet microscopy with a reconfigurable optical geometry, enabling rapid whole-volume imaging of large specimens with user-selectable resolution–speed trade-offs.
RhoU forms homo-oligomers to regulate cellular responses
Shows that the atypical Rho GTPase RhoU forms homo-oligomeric complexes, and that this self-association modulates its downstream signalling activity and cellular effects including cytoskeletal reorganisation.
Methods and systems for characterizing morphodynamic profiles of objects
Patent covering computational methods for extracting and characterising morphodynamic feature profiles from time-lapse imaging data, underpinning the SPOT/SAM phenomics framework.
Anchorage-independent cell proliferation promoted by fascin's F-actin bundling
Demonstrates that fascin-mediated F-actin bundling promotes anchorage-independent growth, establishing a direct link between actin filament organisation and the acquisition of anoikis resistance during cancer progression.
Blebs promote cell survival by assembling oncogenic signalling hubs
Shows that plasma-membrane blebs act as compartments that concentrate and activate pro-survival signalling complexes, revealing a link between actin-driven cell morphology and oncogenic pathway activity.
Mesoscopic oblique plane microscopy via light-sheet mirroring
Extends oblique plane microscopy to mesoscopic fields of view using a light-sheet mirroring geometry, enabling high-speed volumetric imaging of entire model organisms at cellular resolution.
Surface-guided computing to quantify dynamic interactions between cell morphology and molecular signals in 3D
Introduces a surface-guided computational framework that maps fluorescent molecular signals onto the 3D cell surface mesh, enabling quantitative analysis of how spatial signal distributions co-vary with dynamic cell shape changes.
Single-cell phenomics reveals behavioural and mechanical heterogeneities underpinning collective migration during mouse anterior patterning
Uses single-cell morphodynamic profiling to dissect the heterogeneity of migration behaviours and mechanical states within the visceral endoderm during mouse anterior patterning.
Resolution doubling in light-sheet microscopy via oblique plane structured illumination
Combines structured illumination with oblique plane microscopy to achieve two-fold lateral resolution improvement in light-sheet imaging, enabling sub-diffraction volumetric imaging of live specimens at high speed.
Human ZBP1 induces cell death-independent inflammatory signaling via RIPK3 and RIPK1
Demonstrates that human ZBP1 drives a RIPK1/RIPK3-dependent inflammatory signalling programme mechanistically uncoupled from cell death, expanding the known functions of Z-nucleic acid sensing in innate immunity.
Centrioles generate a local pulse of Polo/PLK1 activity to initiate mitotic centrosome assembly
Shows that centrioles generate a spatially restricted burst of PLK1 kinase activity at mitotic entry that acts as a local organising signal to initiate pericentriolar material recruitment and centrosome maturation.
ASPP2 maintains the integrity of mechanically stressed pseudostratified epithelia during morphogenesis
Identifies ASPP2 as a critical regulator of epithelial integrity under mechanical stress, showing that its loss leads to tissue deformation defects during morphogenesis through disruption of apical junction organisation.
Increasing the field-of-view in oblique plane microscopy via optical tiling
Introduces optical tiling to oblique plane microscopy, combining multiple sub-fields into a seamless large field of view while maintaining high numerical aperture, enabling mesoscale light-sheet imaging of intact tissues.
Centriole distal-end proteins CP110 and Cep97 influence centriole cartwheel growth at the proximal end
Reveals long-range communication within the centriole structure, showing that the distal-end capping proteins CP110 and Cep97 feed back to control cartwheel assembly at the proximal end and thereby regulate centriole elongation.
Enhanced cholesterol biosynthesis promotes breast cancer metastasis via modulating CCDC25 expression and neutrophil extracellular traps
Links elevated cholesterol biosynthesis to increased breast cancer metastatic potential through upregulation of CCDC25 and enhanced neutrophil extracellular trap formation in the tumour microenvironment.
Multiscale Pixel Spatiotemporal Information Flows (u-infotrace)
Introduces u-infotrace, a multiscale framework for tracing spatiotemporal information flows at the pixel level in time-lapse imaging, enabling causal analysis of signal propagation across cellular and tissue scales.
A deep learning framework for quality assessment and restoration in video endoscopy
Presents a multi-task deep learning system that simultaneously detects, classifies, and restores endoscopy imaging artefacts in video streams, improving downstream computer-assisted diagnosis reliability in clinical gastrointestinal endoscopy.
An objective comparison of detection and segmentation algorithms for artefacts in clinical endoscopy
Provides a systematic benchmark of artefact detection and segmentation algorithms across the EAD challenge dataset, establishing standardised evaluation metrics for clinical endoscopy image quality assessment.
Visualization of T cell migration in the spleen reveals a network of perivascular pathways that guide entry into T zones
Uses intravital two-photon imaging and quantitative motion analysis to map the perivascular migration routes by which naïve T cells navigate from the vasculature into the splenic T cell zone.
An autonomous oscillation times and executes centriole biogenesis
Identifies a cell-autonomous oscillatory mechanism that both times and drives centriole biogenesis, demonstrating that the centriole duplication cycle is implemented as a biochemical oscillator with intrinsic period control.
Diverse and robust molecular algorithms using reprogrammable DNA self-assembly
Demonstrates that reprogrammable DNA tile self-assembly can implement a diverse library of computational algorithms, establishing a molecular substrate for the physical embedding of information-processing logic.
Motion sensing superpixels (MOSES) — a systematic computational framework to quantify and discover cellular motion phenotypes
Introduces MOSES, a superpixel-based optical-flow framework that extracts quantitative motion phenotypes from time-lapse microscopy without requiring single-cell tracking, enabling large-scale unsupervised discovery of collective migration behaviours.
Endoscopy artifact detection (EAD 2019) challenge dataset
Presents the EAD 2019 challenge benchmark dataset for endoscopy artefact detection and segmentation, providing annotated multi-centre video frames across six artefact categories to drive development of clinical image quality tools.
Characterization of Biological Motion Using Motion Sensing Superpixels
Step-by-step protocol for applying the MOSES motion sensing superpixel framework to time-lapse microscopy data, covering parameter selection, motion phenotype extraction, and visualisation for biological motion analysis.
Cell autonomous role of iASPP deficiency in causing cardiocutaneous disorders
Demonstrates a cell-autonomous requirement for iASPP in cardiac and skin tissue homeostasis, showing that iASPP loss causes cardiocutaneous pathology through disruption of desmosomal junctions and p53-dependent apoptosis.