91 citations · 572 across the 28 of their papers we have counts for
29 papers
Optimal interactions for addressable self-assembly
Tighe McAsey, Sushrut Tadwalkar, Ali Fele-Paranj +1
Addressable self-assembly asks that each building block assemble into a particular location in a target structure. Although particles may all be distinct, achieving high yield is a…
Hopping and crawling DNA-coated colloids
Jeana Aojie Zheng, Miranda Holmes-Cerfon, David J. Pine +1
Understanding the motion of particles with ligand-receptors is important for biomedical applications and material design. Yet, even among a single design, the prototypical DNA-coat…
Monte Carlo on manifolds in high dimensions
Kerun Xu, Miranda Holmes-Cerfon
We introduce an efficient numerical implementation of a Markov Chain Monte Carlo method to sample a probability distribution on a manifold (introduced theoretically in Zappa, Holme…
Mass changes the diffusion coefficient of particles with ligand-receptor contacts in the overdamped limit
Sophie Marbach, Miranda Holmes-Cerfon
Inertia does not generally affect the long-time diffusion of passive overdamped particles in fluids. Yet a model starting from the Langevin equation predicts a surprising property…
Comprehensive view of microscopic interactions between DNA-coated colloids
Fan Cui, Sophie Marbach, Jeana Aojie Zheng +2
The self-assembly of DNA-coated colloids into highly-ordered structures offers great promise for advanced optical materials. However, control of disorder, defects, melting, and cry…
The Nanocaterpillar's Random Walk: Diffusion With Ligand-Receptor Contacts
Sophie Marbach, Jeana Aojie Zheng, Miranda Holmes-Cerfon
Particles with ligand-receptor contacts bind and unbind fluctuating "legs" to surfaces, whose fluctuations cause the particle to diffuse. Quantifying the diffusion of such "nanosca…
Transverse Rigidity is Prestress Stability
Steven J. Gortler, Miranda Holmes-Cerfon, Louis Theran
Recently, V. Alexandrov proposed an intriguing sufficient condition for rigidity, which we will call "transverse rigidity". We show that transverse rigidity is actually equivalent…
Thermodynamic stability versus Kinetic Accessibility: Pareto Fronts for Programmable Self-Assembly
Anthony Trubiano, Miranda Holmes-Cerfon
A challenge in designing self-assembling building blocks is to ensure the target state is both thermodynamically stable and kinetically accessible. These two objectives are known t…
Realizations of Isostatic Material Frameworks
Mahdi Sadjadi, Varda F. Hagh, Mingyu Kang +6
This paper studies the set of equivalent realizations of isostatic frameworks in two dimensions, and algorithms for finding all such realizations. We show that an isostatic framewo…
Simulating sticky particles: A Monte Carlo method to sample a stratification
Miranda Holmes-Cerfon
Many problems in materials science and biology involve particles interacting with strong, short-ranged bonds, that can break and form on experimental timescales. Treating such bond…
From canyons to valleys: Numerically continuing sticky hard sphere clusters to the landscapes of smoother potentials
Anthony Trubiano, Miranda Holmes-Cerfon
We study the energy landscapes of particles with short-range attractive interactions as the range of the interactions increases. Starting with the set of local minima for $6\leq N\…
Almost-rigidity of frameworks
Miranda Holmes-Cerfon, Louis Theran, Steven J. Gortler
We extend the mathematical theory of rigidity of frameworks (graphs embedded in -dimensional space) to consider nonlocal rigidity and flexibility properties. We provide conditio…
Sticky Brownian Motion and its Numerical Solution
Nawaf Bou-Rabee, Miranda Holmes-Cerfon
Sticky Brownian motion is the simplest example of a diffusion process that can spend finite time both in the interior of a domain and on its boundary. It arises in various applicat…
Calculating the symmetry number of flexible sphere clusters
Emilio Zappa, Miranda Holmes-Cerfon
We present a theoretical and computational framework to compute the symmetry number of a flexible sphere cluster in , using a definition of symmetry that arises natur…
Modeling the relative dynamics of DNA-coated colloids
James P. Lee-Thorp, Miranda Holmes-Cerfon
We construct a theoretical model for the dynamics of a microscale colloidal particle, modeled as an interval, moving horizontally on a DNA-coated surface, modelled as a line coated…
Colloidomers: freely-jointed polymers made of droplets
Angus McMullen, Miranda Holmes-Cerfon, Francesco Sciortino +2
An important goal of self-assembly is to achieve a preprogrammed structure with high fidelity. Here, we control the valence of DNA-functionalized emulsions to make linear and branc…
Geometric frustration induces the transition between rotation and counterrotation in swirled granular media
Lisa Lee, John Paul Ryan, Yoav Lahini +2
Granular material in a swirled container exhibits a curious transition as the number of particles is increased: at low densities the particle cluster rotates in the same direction…
Sticky-sphere clusters
Miranda Holmes-Cerfon
Nano- and microscale particles, such as colloids, commonly interact over ranges much shorter than their diameters, so it is natural to treat them as "sticky," interacting only when…
Random sequential adsorption of discs on constant-curvature surfaces: plane, sphere, hyperboloid, and projective plane
Elizabeth R. Chen, Miranda Holmes-Cerfon
We present an algorithm to simulate random sequential adsorption (random "parking") of discs on constant-curvature surfaces: the plane, sphere, hyperboloid, and projective plane, a…
Monte Carlo on manifolds: sampling densities and integrating functions
Emilio Zappa, Miranda Holmes-Cerfon, Jonathan Goodman
We describe and analyze some Monte Carlo methods for manifolds in Euclidean space defined by equality and inequality constraints. First, we give an MCMC sampler for probability dis…
Designing steep, sharp patterns on uniformly ion-bombarded surfaces
Joy C. Perkinson, Michael J. Aziz, Michael P. Brenner +1
We propose and experimentally test a method to fabricate patterns of steep, sharp features on surfaces, by exploiting the nonlinear dynamics of uniformly ion bombarded surfaces. We…
Free energy of singular sticky-sphere clusters
Yoav Kallus, Miranda Holmes-Cerfon
Networks of particles connected by springs model many condensed-matter systems, from colloids interacting with a short-range potential, to complex fluids near jamming, to self-asse…
Stochastic discs that roll
Miranda Holmes-Cerfon
We study a model of rolling particles subject to stochastic fluctuations, which may be relevant in systems of nano- or micro-scale particles where rolling is an approximation for s…
Two-Dimensional Clusters of Colloidal Spheres: Ground States, Excited States, and Structural Rearrangements
Rebecca W. Perry, Miranda C. Holmes-Cerfon, Michael P. Brenner +1
We study experimentally what is arguably the simplest yet non-trivial colloidal system: two-dimensional clusters of 6 spherical particles bound by depletion interactions. These clu…