126 citations · 414 across the 14 of their papers we have counts for
14 papers
MesoMem: A mesoscale membrane model based on an additive potential
Pietro Sillano, Siewert-Jan Marrink, Timon Idema
Bridging the gap between atomistic detail and continuum mechanics is a central challenge in modeling biological membranes, particularly for mesoscopic phenomena spanning large leng…
flippy: User friendly and open source framework for lipid membrane simulations
George Dadunashvili, Timon Idema
Animal cells are both encapsulated and subdivided by lipid bilayer membranes. Beyond just acting as boundaries, these membranes' shapes influence the function of cells and their co…
Emergent order in a continuous state adaptive network model of living systems
Carsten T. van de Kamp, George Dadunashvili, Johan L. A. Dubbeldam +1
Order can spontaneously emerge from seemingly noisy interactions between biological agents, like a flock of birds changing their direction of flight in unison, without a leader or…
Defect dynamics in growing bacterial colonies
Rachel Los, Duco van Holthe tot Echten, Gerhard Nordemann +3
Colonies of rod-shaped bacteria constitute a system of colloidal active matter with nematic properties. As a single initial bacterium multiplies through repeated divisions, the res…
Mechanics of epithelial tissue formation
Ruben van Drongelen, Tania Vazquez-Faci, Teun A. P. M. Huijben +2
A key process in the life of any multicellular organism is its development from a single egg into a full grown adult. The first step in this process often consists of forming a tis…
Curvature variation controls particle aggregation on fluid vesicles
Afshin Vahid, Anđela Šarić, Timon Idema
Cellular membranes exhibit a large variety of shapes, strongly coupled to their function. Many biological processes involve dynamic reshaping of membranes, usually mediated by prot…
Active particle dynamics beyond the jamming density
Daniel R. McCusker, Ruben van Drongelen, Timon Idema
Many biological systems form colonies at high density. Passive granular systems will be jammed at such densities, yet for the survival of biological systems it is crucial that they…
Lipid membrane-mediated attractions between curvature inducing objects
Casper van der Wel, Afshin Vahid, Anđela Šarić +3
The interplay of membrane proteins is vital for many biological processes, such as cellular transport, cell division, and signal transduction between nerve cells. Theoretical consi…
Point-like inclusion interactions in tubular membranes
Afshin Vahid, Timon Idema
We analytically study membrane mediated interactions between inclusions embedded in a tubular membrane. We model inclusions as constraints coupled to the curvature tensor of the me…
A Reaction-Diffusion Model of the Cadherin-Catenin System: A Possible Mechanism for Contact Inhibition and Implications for Tumorigenesis
Markus Basan, Timon Idema, Martin Lenz +2
Contact inhibition is the process by which cells switch from a motile growing state to a passive and stabilized state upon touching their neighbors. When two cells touch, an adhesi…
Collective dynamics of soft active particles
Ruben van Drongelen, Anshuman Pal, Carl P. Goodrich +1
We present a model of soft active particles that leads to a rich array of collective behavior found also in dense biological swarms of bacteria and other unicellular organisms. Our…
Mechanical signaling via nonlinear wavefront propagation in a mechanically-excitable medium
Timon Idema, Andrea J. Liu
Models that invoke nonlinear wavefront propagation in a chemically excitable medium are rife in the biological literature. Indeed, the idea that wavefront propagation can serve as…
The syncytial Drosophila embryo as a mechanically excitable medium
Timon Idema, Julien O. Dubuis, Louis Kang +4
Mitosis in the early syncytial Drosophila embryo is highly correlated in space and time, as manifested in mitotic wavefronts that propagate across the embryo. In this paper we inve…
Accurate determination of elastic parameters for multi-component membranes
Stefan Semrau, Timon Idema, Laurent Holtzer +2
Heterogeneities in the cell membrane due to coexisting lipid phases have been conjectured to play a major functional role in cell signaling and membrane trafficking. Thereby the ma…