Dissipative inertial transport patterns near coherent Lagrangian eddies in the ocean

Recent developments in dynamical systems theory have revealed long-lived and coherent Lagrangian (i.e., material) eddies in incompressible, satellite-derived surface ocean velocity fields. Paradoxically, observed drifting buoys and floating matter tend to create dissipative-looking patterns near oceanic eddies, which appear to…

Premigratory and migratory neural crest cells are multipotent in vivo

The neural crest (NC) is an embryonic stem/progenitor cell population that generates a diverse array of cell lineages, including peripheral neurons, myelinating Schwann cells, and melanocytes, among others. However, there is a long-standing controversy as to whether this broad developmental…

Concurrent Cooperativity and Substrate Inhibition in the Epoxidation of Carbamazepine by Cytochrome P450 3A4 Active Site Mutants Inspired by Molecular Dynamics Simulations

Cytochrome P450 3A4 (CYP3A4) is the major human P450 responsible for the metabolism of carbamazepine (CBZ). To explore the mechanisms of interactions of CYP3A4 with this anticonvulsive drug, we carried out multiple molecular dynamics (MD) simulations, starting with the complex…

Bubble Evolution and Properties in Homogeneous Nucleation Simulations

We analyze the properties of naturally formed nano-bubbles in Lennard-Jones molecular dynamics simulations of liquid-to-vapor nucleation in the boiling and the cavitation regimes. The large computational volumes provide a realistic environment at unchanging average temperature and liquid pressure, which allows…

Evolution and emergence of infectious diseases in theoretical and real-world networks

One of the most important advancements in theoretical epidemiology has been the development of methods that account for realistic host population structure. The central finding is that heterogeneity in contact networks, such as the presence of ‘superspreaders’, accelerates infectious disease…

A method for computing curved meshes via the linear elasticity analogy, application to fluid dynamics problems

We propose and analyze an algorithm for the robust construction of curved meshes in two and three dimensions. The meshes are made of curved simplexes. The algorithm starts from a mesh made of straight simplexes, and using a linear elasticity…

Multilevel Monte Carlo for the Feynman–Kac formula for the Laplace equation

Since its formulation in the late 1940s, the Feynman–Kac formula has proven to be an effective tool for both theoretical reformulations and practical simulations of differential equations. The link it establishes between such equations and stochastic processes can be exploited…

Random Walk TripleRush: Asynchronous Graph Querying and Sampling

Most Semantic Web applications rely on querying graphs, typically by using SPARQL with a triple store. Increasingly, applications also analyze properties of the graph structure to compute statistical inferences. The current Semantic Web infrastructure, however, does not efficiently support such…