GLC actors, artificial chemical connectomes, topological issues and knots

Based on graphic lambda calculus, we propose a program for a new model of asynchronous distributed computing, inspired from Hewitt Actor Model, as well as several investigation paths, concerning how one may graft lambda calculus and knot diagrammatics

ADAM: Analysis of Discrete Models of Biological Systems Using Computer Algebra

Background: Many biological systems are modeled qualitatively with discrete models, such as probabilistic Boolean networks, logical models, Petri nets, and agent-based models, with the goal to gain a better understanding of the system. The computational complexity to analyze the complete dynamics of these models grows exponentially in the number of variables, which impedes working with complex models. Although there exist sophisticated algorithms to determine the dynamics of discrete models, their implementations usually require labor-intensive formatting of the model formulation, and they are oftentimes not accessible to users without programming skills. Efficient analysis methods are needed that are accessible to modelers and easy to use. Method: By converting discrete models into algebraic models, tools from computational algebra can be used to analyze their dynamics. Specifically, we propose a method to identify attractors of a discrete model that is equivalent to solving a system of polynomial equations, a long-studied problem in computer algebra. Results: A method for efficiently identifying attractors, and the web-based tool Analysis of Dynamic Algebraic Models (ADAM), which provides this and other analysis methods for discrete models. ADAM converts several discrete model types automatically into polynomial dynamical systems and analyzes their dynamics using tools from computer algebra. Based on extensive experimentation with both discrete models arising in systems biology and randomly generated networks, we found that the algebraic algorithms presented in this manuscript are fast for systems with the structure maintained by most biological systems, namely sparseness, i.e., while the number of nodes in a biological network may be quite large, each node is affected only by a small number of other nodes, and robustness, i.e., small number of attractors

Two-loop Integral Reduction from Elliptic and Hyperelliptic Curves

We show that for a class of two-loop diagrams, the on-shell part of the integration-by-parts (IBP) relations correspond to exact meromorphic one-forms on algebraic curves. Since it is easy to find such exact meromorphic one-forms from algebraic geometry, this idea provides a new highly efficient algorithm for integral reduction. We demonstrate the power of this method via several complicated two-loop diagrams with internal massive legs. No explicit elliptic or hyperelliptic integral computation is needed for our method.Comment: minor changes: more references adde

Azurite: An algebraic geometry based package for finding bases of loop integrals

For any given Feynman graph, the set of integrals with all possible powers of the propagators spans a vector space of finite dimension. We introduce the package {\sc Azurite} ({\bf A ZUR}ich-bred method for finding master {\bf I}n{\bf TE}grals), which efficiently finds a basis of this vector space. It constructs the needed integration-by-parts (IBP) identities on a set of generalized-unitarity cuts. It is based on syzygy computations and analyses of the symmetries of the involved Feynman diagrams and is powered by the computer algebra systems {\sc Singular} and {\sc Mathematica}. It can moreover analytically calculate the part of the IBP identities that is supported on the cuts.Comment: Version 1.1.0 of the package Azurite, with parallel computations. It can be downloaded from https://bitbucket.org/yzhphy/azurite/raw/master/release/Azurite_1.1.0.tar.g

Comments on worldsheet theories dual to free large N gauge theories

We continue to investigate properties of the worldsheet conformal field theories (CFTs) which are conjectured to be dual to free large N gauge theories, using the mapping of Feynman diagrams to the worldsheet suggested in hep-th/0504229. The modular invariance of these CFTs is shown to be built into the formalism. We show that correlation functions in these CFTs which are localized on subspaces of the moduli space may be interpreted as delta-function distributions, and that this can be consistent with a local worldsheet description given some constraints on the operator product expansion coefficients. We illustrate these features by a detailed analysis of a specific four-point function diagram. To reliably compute this correlator we use a novel perturbation scheme which involves an expansion in the large dimension of some operators.Comment: 43 pages, 16 figures, JHEP format. v2: added reference

Implicitization of surfaces via geometric tropicalization

In this paper we further develop the theory of geometric tropicalization due to Hacking, Keel and Tevelev and we describe tropical methods for implicitization of surfaces. More precisely, we enrich this theory with a combinatorial formula for tropical multiplicities of regular points in arbitrary dimension and we prove a conjecture of Sturmfels and Tevelev regarding sufficient combinatorial conditions to compute tropical varieties via geometric tropicalization. Using these two results, we extend previous work of Sturmfels, Tevelev and Yu for tropical implicitization of generic surfaces, and we provide methods for approaching the non-generic cases.Comment: 20 pages, 6 figures. Mayor reorganization and exposition improved. The results on geometric tropicalization have been extended to any dimension. In particular, Conjecture 2.8 is now Theorem 2.

PP-persistent homology of finite topological spaces

Let $P$ be a finite poset. We will show that for any reasonable $P$-persistent object $X$ in the category of finite topological spaces, there is a $P-$ weighted graph, whose clique complex has the same $P$-persistent homology as $X$

QCD Amplitudes: new perspectives on Feynman integral calculus

I analyze the algebraic patterns underlying the structure of scattering amplitudes in quantum field theory. I focus on the decomposition of amplitudes in terms of independent functions and the systems of differential equations the latter obey. In particular, I discuss the key role played by unitarity for the decomposition in terms of master integrals, by means of generalized cuts and integrand reduction, as well as for solving the corresponding differential equations, by means of Magnus exponential series.Comment: Presented at Rencontres de Moriond 201