Identifying the parametric occurrence of multiple steady states for some biological networks

We consider a problem from biological network analysis of determining regions in a parameter space over which there are multiple steady states for positive real values of variables and parameters. We describe multiple approaches to address the problem using tools from Symbolic Computation. We describe how progress was made to achieve semi-algebraic descriptions of the multistationarity regions of parameter space, and compare symbolic results to numerical methods. The biological networks studied are models of the mitogen-activated protein kinases (MAPK) network which has already consumed considerable effort using special insights into its structure of corresponding models. Our main example is a model with 11 equations in 11 variables and 19 parameters, 3 of which are of interest for symbolic treatment. The model also imposes positivity conditions on all variables and parameters. We apply combinations of symbolic computation methods designed for mixed equality/inequality systems, specifically virtual substitution, lazy real triangularization and cylindrical algebraic decomposition, as well as a simplification technique adapted from Gaussian elimination and graph theory. We are able to determine multistationarity of our main example over a 2-dimensional parameter space. We also study a second MAPK model and a symbolic grid sampling technique which can locate such regions in 3-dimensional parameter space.Comment: 60 pages - author preprint. Accepted in the Journal of Symbolic Computatio

Computing hypergeometric functions rigorously

We present an efficient implementation of hypergeometric functions in arbitrary-precision interval arithmetic. The functions ${}_0F_1$, ${}_1F_1$, ${}_2F_1$ and ${}_2F_0$ (or the Kummer $U$-function) are supported for unrestricted complex parameters and argument, and by extension, we cover exponential and trigonometric integrals, error functions, Fresnel integrals, incomplete gamma and beta functions, Bessel functions, Airy functions, Legendre functions, Jacobi polynomials, complete elliptic integrals, and other special functions. The output can be used directly for interval computations or to generate provably correct floating-point approximations in any format. Performance is competitive with earlier arbitrary-precision software, and sometimes orders of magnitude faster. We also partially cover the generalized hypergeometric function ${}_pF_q$ and computation of high-order parameter derivatives.Comment: v2: corrected example in section 3.1; corrected timing data for case E-G in section 8.5 (table 6, figure 2); adjusted paper siz

Splitting Behavior of SnS_n-Polynomials

We analyze the probability that, for a fixed finite set of primes S, a random, monic, degree n polynomial f(x) with integer coefficients in a box of side B around 0 satisfies: (i) f(x) is irreducible over the rationals, with splitting field over the rationals having Galois group $S_n$; (ii) the polynomial discriminant Disc(f) is relatively prime to all primes in S; (iii) f(x) has a prescribed splitting type at each prime p in S. The limit probabilities as $B \to \infty$ are described in terms of values of a one-parameter family of measures on $S_n$, called splitting measures, with parameter $z$ evaluated at the primes p in S. We study properties of these measures. We deduce that there exist degree n extensions of the rationals with Galois closure having Galois group $S_n$ with a given finite set of primes S having given Artin symbols, with some restrictions on allowed Artin symbols for p<n. We compare the distributions of these measures with distributions formulated by Bhargava for splitting probabilities for a fixed prime $p$ in such degree $n$ extensions ordered by size of discriminant, conditioned to be relatively prime to $p$.Comment: 33 pages, v2 34 pages, introduction revise

The notion of dimension in geometry and algebra

This talk reviews some mathematical and physical ideas related to the notion of dimension. After a brief historical introduction, various modern constructions from fractal geometry, noncommutative geometry, and theoretical physics are invoked and compared.Comment: 29 pages, a revie

COMPUTER TOOLS FOR SOLVING MATHEMATICAL PROBLEMS: A REVIEW

The rapid development of digital computer hardware and software has had a dramatic influence on mathematics, and contrary. The advanced hardware and modern sophistical software such as computer visualization, symbolic computation, computerassisted proofs, multi-precision arithmetic and powerful libraries, have provided resolving many open problems, a huge very difficult mathematical problems, and discovering new patterns and relationships, far beyond a human capability. In the first part of the paper we give a short review of some typical mathematical problems solved by computer tools. In the second part we present some new original contributions, such as intriguing consequence of the presence of roundoff errors, distribution of zeros of random polynomials, dynamic study of zero-finding methods, a new three-point family of methods for solving nonlinear equations and two algorithms for the inclusion of a simple complex zero of a polynomial