Scaling universalities of kth-nearest neighbor distances on closed manifolds

Take N sites distributed randomly and uniformly on a smooth closed surface. We express the expected distance from an arbitrary point on the surface to its kth-nearest neighboring site, in terms of the function A(l) giving the area of a disc of radius l about that point. We then find two universalities. First, for a flat surface, where A(l)=\pi l^2, the k-dependence and the N-dependence separate in . All kth-nearest neighbor distances thus have the same scaling law in N. Second, for a curved surface, the average \int d\mu over the surface is a topological invariant at leading and subleading order in a large N expansion. The 1/N scaling series then depends, up through O(1/N), only on the surface's topology and not on its precise shape. We discuss the case of higher dimensions (d>2), and also interpret our results using Regge calculus.Comment: 14 pages, 2 figures; submitted to Advances in Applied Mathematic

Symmetry-protected Topological Phases at Finite Temperature

We have applied the recently developed theory of topological Uhlmann numbers to a representative model of a topological insulator in two dimensions, the Qi-Wu-Zhang model. We have found a stable symmetry-protected topological (SPT) phase under external thermal fluctuations in two-dimensions. A complete phase diagram for this model is computed as a function of temperature and coupling constants in the original Hamiltonian. It shows the appearance of large stable phases of matter with topological properties compatible with thermal fluctuations or external noise and the existence of critical lines separating abruptly trivial phases from topological phases. These novel critical temperatures represent thermal topological phase transitions. The initial part of the paper comprises a self-contained explanation of the Uhlmann geometric phase needed to understand the topological properties that it may acquire when applied to topological insulators and superconductors.Comment: Contribution to the focus issue on "Artificial Graphene". Edited by Maciej Lewenstein, Vittorio Pellegrini, Marco Polini and Mordechai (Moti) Sege

Edge usage, motifs and regulatory logic for cell cycling genetic networks

The cell cycle is a tightly controlled process, yet its underlying genetic network shows marked differences across species. Which of the associated structural features follow solely from the ability to impose the appropriate gene expression patterns? We tackle this question in silico by examining the ensemble of all regulatory networks which satisfy the constraint of producing a given sequence of gene expressions. We focus on three cell cycle profiles coming from baker's yeast, fission yeast and mammals. First, we show that the networks in each of the ensembles use just a few interactions that are repeatedly reused as building blocks. Second, we find an enrichment in network motifs that is similar in the two yeast cell cycle systems investigated. These motifs do not have autonomous functions, but nevertheless they reveal a regulatory logic for cell cycling based on a feed-forward cascade of activating interactions.Comment: 9 pages, 9 figures, to be published in Phys. Rev.