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Indentation is a common experimental technique to study the mechanics of polymeric materials. The main advantage of using indentation is because this provides a direct correlation between the microstructure and the small-scale mechanical…
Fundamental understanding of the effect of microscopic parameters on the dynamics of probe particles in different complex environments has wide implications. Examples include diffusion of proteins in the biological hydrogels, porous media,…
Transient bonds between fast linkers and slower particles are widespread in physical and biological systems. In spite of their diverse structure and function, a commonality is that the linkers diffuse on timescales much faster compared to…
The brain's connectome and the vascular system are examples of physical networks whose tangible nature influences their structure, layout, and ultimately their function. The material resources required to build and maintain these networks…
We study a mathematical model of social diffusion on a symmetric weighted network where individual nodes' states gradually assimilate to local social norms made by their neighbors' average states. Unlike physical diffusion, this process is…
Many complex networks from the World-Wide-Web to biological networks are growing taking into account the heterogeneous features of the nodes. The feature of a node might be a discrete quantity such as a classification of a URL document as…
A rich class of network models associate each node with a low-dimensional latent coordinate that controls the propensity for connections to form. Models of this type are well established in the network analysis literature, where it is…
In protein folding the term plasticity refers to the number of alternative folding pathways encountered in response to free energy perturbations such as those induced by mutation. Here we explore the relation between folding plasticity and…
We develop a linear-algebraic framework for dimensional analysis in systems with constraints, particularly when variables are numerous or related by implicit relations so that direct elimination is impractical. By expressing both…
We revisit the concept of minimal rigidity as applied to soft repulsive, frictionless sphere packings in two-dimensions with the introduction of the jamming graph. Minimal rigidity is a purely combinatorial property encoded via Laman's…
Recent numerical work by Bardarson et. al. [Phys. Rev. Lett. 109, 017202 (2012)] revealed a slow, logarithmic in time, growth of entanglement entropy for initial product states in a putative many-body localized phase. We show that this…
Network embedding has recently emerged as a promising technique to embed nodes of a network into low-dimensional vectors. While fairly successful, most existing works focus on the embedding techniques for static networks. But in practice,…
Physical mechanisms underlying the empirical correlation between relative contact order (CO) and folding rate among naturally-occurring small single-domain proteins are investigated by evaluating postulated interaction schemes for a set of…
We numerically investigate that optimal robust onion-like networks can emerge even with the constraint of surface growth in supposing a spatially embedded transportation or communication system. To be onion-like, moderately long links are…
Amphiphiles self-assemble into a variety of bicontinuous mesophases whose equilibrium structures take the form of high-symmetry cubic networks. Here, we show that the symmetry-breaking distortions in these systems give rise to anomalously…
This paper investigates the localization problem of a network in 2-D and 3-D spaces given the positions of anchor nodes in a global frame and inter-node relative measurements in local coordinate frames. It is assumed that the local frames…
Interactions between rigid inclusions in continuous three-dimensional linearly elastic solids and low-Reynolds-number viscous fluids have largely been quantified during the past. Prime example systems are given by functionalized elastic…
This paper addresses the problem of constructing bearing rigid networks in arbitrary dimensions. We first show that the bearing rigidity of a network is a generic property that is critically determined by the underlying graph of the…
Assemblies of anisotropic particles commonly appear in studies of active many-body systems. However, in two dimensions, the geometric ramifications of the finite density of such objects are not entirely understood. To fully characterize…
We study the cooperative rupture of multiple adhesion bonds under shared linear loading. Simulations of the appropriate Master equation are compared with numerical integration of a rate equation for the mean number of bonds and its scaling…