The genotype-phenotype relationship in multicellular pattern-generating models - the neglected role of pattern descriptors

Background: A deep understanding of what causes the phenotypic variation arising from biological patterning processes, cannot be claimed before we are able to recreate this variation by mathematical models capable of generating genotype-phenotype maps in a causally cohesive way. However, the concept of pattern in a multicellular context implies that what matters is not the state of every single cell, but certain emergent qualities of the total cell aggregate. Thus, in order to set up a genotype-phenotype map in such a spatiotemporal pattern setting one is actually forced to establish new pattern descriptors and derive their relations to parameters of the original model. A pattern descriptor is a variable that describes and quantifies a certain qualitative feature of the pattern, for example the degree to which certain macroscopic structures are present. There is today no general procedure for how to relate a set of patterns and their characteristic features to the functional relationships, parameter values and initial values of an original pattern-generating model. Here we present a new, generic approach for explorative analysis of complex patterning models which focuses on the essential pattern features and their relations to the model parameters. The approach is illustrated on an existing model for Delta-Notch lateral inhibition over a two-dimensional lattice. Results: By combining computer simulations according to a succession of statistical experimental designs, computer graphics, automatic image analysis, human sensory descriptive analysis and multivariate data modelling, we derive a pattern descriptor model of those macroscopic, emergent aspects of the patterns that we consider of interest. The pattern descriptor model relates the values of the new, dedicated pattern descriptors to the parameter values of the original model, for example by predicting the parameter values leading to particular patterns, and provides insights that would have been hard to obtain by traditional methods. Conclusion: The results suggest that our approach may qualify as a general procedure for how to discover and relate relevant features and characteristics of emergent patterns to the functional relationships, parameter values and initial values of an underlying pattern-generating mathematical model

Noisy Classical Field Theories with Two Coupled Fields: Dependence of Escape Rates on Relative Field Stiffnesses

Exit times for stochastic Ginzburg-Landau classical field theories with two or more coupled classical fields depend on the interval length on which the fields are defined, the potential in which the fields deterministically evolve, and the relative stiffness of the fields themselves. The latter is of particular importance in that physical applications will generally require different relative stiffnesses, but the effect of varying field stiffnesses has not heretofore been studied. In this paper, we explore the complete phase diagram of escape times as they depend on the various problem parameters. In addition to finding a transition in escape rates as the relative stiffness varies, we also observe a critical slowing down of the string method algorithm as criticality is approached.Comment: 16 pages, 10 figure

Invariant measures for Cherry flows

We investigate the invariant probability measures for Cherry flows, i.e. flows on the two-torus which have a saddle, a source, and no other fixed points, closed orbits or homoclinic orbits. In the case when the saddle is dissipative or conservative we show that the only invariant probability measures are the Dirac measures at the two fixed points, and the Dirac measure at the saddle is the physical measure. In the other case we prove that there exists also an invariant probability measure supported on the quasi-minimal set, we discuss some situations when this other invariant measure is the physical measure, and conjecture that this is always the case. The main techniques used are the study of the integrability of the return time with respect to the invariant measure of the return map to a closed transversal to the flow, and the study of the close returns near the saddle.Comment: 12 pages; updated versio

Effects of intervention upon precompetition state anxiety in elite junior tennis players: The relevance of the matching hypothesis

Reproduced with permission of publisher from: Terry, P., Coakley, L., & Karageorghis, C. Effects of intervention upon precompetition state anxiety in elite junior tennis players: the relevance of the matching hypothesis. Perceptual and Motor Skills, 1995, 81, 287-296. © Perceptual and Motor Skills 1995The matching hypothesis proposes that interventions for anxiety should be matched to the modality in which anxiety is experienced. This study investigated the relevance of the matching hypothesis for anxiety interventions in tennis. Elite junior tennis players (N = 100; Age: M = 13.9 yr., SD = 1.8 yr.) completed the Competitive State Anxiety Inventory-2 before and after one of four randomly assigned intervention strategies approximately one hour prior to competition at a National Junior Championship. A two-factor multivariate analysis of variance (group x time) with repeated measures on the time factor gave no significant main effect by group but indicated significant reductions in somatic anxiety and cognitive anxiety and a significant increase in self-confidence following intervention. A significant group by time interaction emerged for self-confidence. The results question the need to match intervention strategy to the mode of anxiety experienced

The multipliers of periodic points in one-dimensional dynamics

It will be shown that the smooth conjugacy class of an $S-$unimodal map which does not have a periodic attractor neither a Cantor attractor is determined by the multipliers of the periodic orbits. This generalizes a result by M.Shub and D.Sullivan for smooth expanding maps of the circle

Development and operation of a pixel segmented liquid-filled linear array for radiotherapy quality assurance

A liquid isooctane (C$_{8}$H$_{18}$) filled ionization linear array for radiotherapy quality assurance has been designed, built and tested. The detector consists of 128 pixels, each of them with an area of 1.7 mm $\times$ 1.7 mm and a gap of 0.5 mm. The small pixel size makes the detector ideal for high gradient beam profiles like those present in Intensity Modulated Radiation Therapy (IMRT) and radiosurgery. As read-out electronics we use the X-Ray Data Acquisition System (XDAS) with the Xchip developed by the CCLRC. Studies concerning the collection efficiency dependence on the polarization voltage and on the dose rate have been made in order to optimize the device operation. In the first tests we have studied dose rate and energy dependences, and signal reproducibility. Dose rate dependence was found lower than 2.5 % up to 5 Gy min$^{-1}$, and energy dependence lower than 2.1 % up to 20 cm depth in solid water. Output factors and penumbras for several rectangular fields have been measured with the linear array and were compared with the results obtained with a 0.125 cm$^{3}$ air ionization chamber and radiographic film, respectively. Finally, we have acquired profiles for an IMRT field and for a virtual wedge. These profiles have also been compared with radiographic film measurements. All the comparisons show a good correspondence. Signal reproducibility was within a 2% during the test period (around three months). The device has proved its capability to verify on-line therapy beams with good spatial resolution and signal to noise ratio.Comment: 16 pages, 12 figures Submitted to Phys. Med. Bio

Administrative Information Systems In an International Research Environment

We present here the administrative IT tools deployed at CERN, to support our international collaborative research environment. CERN specific requirements are presented together with our solutions to support them. Finally a simple quantitative analysis of costs and benefits is presented for a few selected areas

Search for antiproton decay at the Fermilab Antiproton Accumulator

A search for antiproton decay has been made at the Fermilab Antiproton Accumulator. Limits are placed on thirteen antiproton decay modes. The results include the first explicit experimental limits on the muonic decay modes of the antiproton, and the first limits on the decay modes e- gamma gamma, and e- omega. The most stringent limit is for the decay mode pbar-> e- gamma. At 90% C.L. we find that tau/B(pbar-> e- gamma) > 7 x 10^5 yr. The most stringent limit for decay modes with a muon in the final state is for the decay pbar-> mu- gamma. At 90% C.L. we find that tau/B(pbar-> mu- gamma) > 5 x 10^4 yr.Comment: 20 pages, 8 figures. Submitted to Phys. Rev. D. Final results on 13 channels (was 15) are presente