Although previous studies of Gillespie syndrome have systematically reported a generalized delay of cognitive development (mental retardation or oligophrenia), psychometric data to substantiate this view are strikingly absent. In the present study two first degree relatives (mother and daughter) with Gillespie syndrome were neuropsychologically investigated. Aside from a marked asymmetry in the...

In this study we propose an improvement for the stochastic simulation algorithm (SSA), a standard method to properly realize the stochastic nature of biochemical reactions. Our algorithm is named RSSA after “rejection-based SSA”, and is tailored for the efficient simulation of large models, which is typically done to understand the complex behavior of regulatory systems. The large models are hi...

A new algorithm, "HiER-leap" (hierarchical exact reaction-leaping), is derived which improves on the computational properties of the ER-leap algorithm for exact accelerated simulation of stochastic chemical kinetics. Unlike ER-leap, HiER-leap utilizes a hierarchical or divide-and-conquer organization of reaction channels into tightly coupled "blocks" and is thereby able to speed up systems with...

There have been many readings of Mead’s work, and this paper proposes yet another: Mead, theorist of the social act. It is argued that Mead’s core theory of the social act has been neglected, and that without this theory, the concept of taking the attitude of the other is inexplicable and the contemporary relevance of the concept of the significant symbol is obfuscated. The paper traces the dev...

A method is developed for incorporating diffusion of chemicals in complex geometries into stochastic chemical kinetics simulations. Systems are modeled using the reaction-diffusion master equation, with jump rates for diffusive motion between mesh cells calculated from the discretization weights of an embedded boundary method. Since diffusive jumps between cells are treated as first order react...

To examine how semantic integration and the scope of advance planning affect utterance planning and subject-verb agreement error rates, participants described picture displays using complex subject noun phrases (e.g., the apple for the pie(s)), with singular head nouns (apple) and local nouns (pie(s)) in prepositional phrase modifiers, and then completed them as full sentences. Semantic integra...

It has been shown that differences in fecundity variance can influence the probability of invasion of a genotype in a population, i.e. a genotype with lower variance in offspring number can be favored in finite populations even if it has a somewhat lower mean fitness than a competitor. In this paper, Gillespie's results are extended to population genetic systems with explicit age structure, whe...

We take up the challenge of designing realistic computational models of large interacting cell populations. The goal is essentially to bring Gillespie’s celebrated stochastic methodology to the level of an interacting population of cells. Specifically, we are interested in how the gold standard of single cell computational modeling, here taken to be spatial stochastic reaction-diffusion models,...

Vienna RNA Package software Kinfold implements the Gillespie algorithm for RNA secondary structure folding kinetics, for the move sets MS1 [resp. MS2], consisting of base pair additions and removals [resp. base pair addition, removals and shifts]. In this paper, for arbitrary secondary structures s, t of a given RNA sequence, we present the first optimal algorithm to compute the shortest MS2 fo...