110 citations · 343 across the 11 of their papers we have counts for
13 papers
Simulating Organogenesis: Algorithms for the Image-based Determination of Displacement Fields
Clemens Arthur Schwaninger, Denis Menshykau, Dagmar Iber
Recent advances in imaging technology now provide us with 3D images of developing organs. These can be used to extract 3D geometries for simulations of organ development. To solve…
Simulating Organogenesis in COMSOL: Image-based Modeling
Zahra Karimaddini, Erkan Unal, Denis Menshykau +1
Mathematical Modelling has a long history in developmental biology. Advances in experimental techniques and computational algorithms now permit the development of increasingly more…
Feedbacks, Receptor Clustering, and Receptor Restriction to Single Cells yield large Turing Spaces for Ligand-receptor based Turing Models
Tamás Kurics, Denis Menshykau, Dagmar Iber
Turing mechanisms can yield a large variety of patterns from noisy, homogenous initial conditions and have been proposed as patterning mechanism for many developmental processes. H…
Simulating Organogenesis in COMSOL: Cell-based Signaling Models
Jannik Vollmer, Denis Menshykau, Dagmar Iber
Most models of biological pattern formation are simulated on continuous domains even though cells are discrete objects that provide internal boundaries to the diffusion of regulato…
Simulating Organogenesis in COMSOL: Parameter Optimization for PDE-based models
Denis Menshykau, Srivathsan Adivarahan, Philipp Germann +2
Morphogenesis is a tightly regulated process that has been studied for decades. We are developing data-based and image-basd mechanistic models for a range of developmental processe…
The Control of Branching Morphogenesis
Dagmar Iber, Denis Menshykau
Many organs of higher organisms are heavily branched structures and arise by an at first sight similar process of branching morphogenesis. Yet the regulatory components and local i…
Dynamic Image-Based Modelling of Kidney Branching Morphogenesis
Srivathsan Adivarahan, Denis Menshykau, Odysse Michos +1
Kidney branching morphogenesis has been studied extensively, but the mechanism that defines the branch points is still elusive. Here we obtained a 2D movie of kidney branching morp…
Kidney branching morphogenesis under the control of a ligand-receptor based Turing mechanism
Denis Menshykau, Dagmar Iber
The main signalling proteins that control early kidney branching have been defined. Yet the underlying mechanism is still elusive. We have previously shown that a Schnakenberg-type…
Simulating Tissue Morphogenesis and Signaling
Dagmar Iber, Simon Tanaka, Patrick Fried +2
During embryonic development tissue morphogenesis and signaling are tightly coupled. It is therefore important to simulate both tissue morphogenesis and signaling simultaneously in…
Digit patterning during limb development as a result of the BMP-receptor interaction
Amarendra Badugu, Conradin Kraemer, Philipp Germann +2
Turing models have been proposed to explain the emergence of digits during limb development. However, so far the molecular components that would give rise to Turing patterns are el…
Simulation Organogenesis in COMSOL: Deforming and Interacting Domains
Denis Menshykau, Dagmar Iber
Organogenesis is a tightly regulated process that has been studied experimentally for decades. We are developing mechanistic models for the morphogenesis of limbs, lungs, and kidne…
Simulations demonstrate a simple network to be sufficient to control branch point selection, smooth muscle and vasculature formation during lung branching morphogenesis
Géraldine Cellière, Denis Menshykau, Dagmar Iber
Proper lung functioning requires not only a correct structure of the conducting airway tree, but also the simultaneous development of smooth muscles and vasculature. Lung branching…
Branch Mode Selection during Early Lung Development
Denis Menshykau, Conradin Kraemer, Dagmar Iber
Many organs of higher organisms, such as the vascular system, lung, kidney, pancreas, liver and glands, are heavily branched structures. The branching process during lung developme…