Sökresultat

A common problem in particle physics is the requirement to reproduce comparisons between data and theory when the theory is a (general purpose) Monte Carlo simulation and the data are measurements of final state observables in high energy collisions. The complexity of the experiments, the obervables and the models all contribute to making this a highly non-trivial task. We describe an existing lib

There are many ways to define the distance between two protein structures, thus assessing their similarity. Here, we investigate and compare the properties of five different distance measures, including the standard root-mean-square deviation (cRMSD). The performance of these measures is studied from different perspectives with two different protein models, one continuous and the other discrete. U

We present a simple model for the arterial part of the cardiovascular system, based on Poiseuille flow constrained by the power dissipated into the cells lining the vessels. This, together with the assumption of a volume-filling network, leads to correct predictions for the evolution of vessel radii, vessel lengths and blood pressure in the human arterial system. The model can also be used to find

In recent years, the advent of experimental methods top robe gene expression profiles of cancer on a genome-wide scale has led to widespread use of supervised machine learning algorithms to characterize these profiles. The main applications of these analysis methods range from assigning functional classes of previously uncharacterized genes to classification and prediction of different cancer tiss

Z(SPA-1) is an engineered protein that binds to its parent, the three-helix-bundle Z domain of staphylococcal protein A. Uncomplexed Z(SPA-1) shows a reduced helix content and a melting behavior that is less cooperative, compared with the wild-type Z domain. Here we show that the difference in folding behavior between these two sequences can be partly understood in terms of an off-lattice model wi

An overview on activities to determine unintegrated parton density functions is given and the concept and need for unintegrated PDFs is discussed. It is also argued that it is important to reformulate perturbative QCD results in terms of fully unintegrated parton densities, differential in all components of the parton momentum. Also the need for non-linear BFKL evolution is discussed and results u

The effects of hormone and growth factor signaling on gene expression contribute significantly to breast tumorigenesis and disease progression; however, the targets of signaling networks associated with deregulated growth are not well understood. We defined the dynamic transcriptional effects elicited in MCF7, T-47D, and MDA-MB-436 breast cancer cell lines by nine regulators of growth and differen

We propose and investigate a unifying class of sparse random graph models, based on a hidden coloring of edge-vertex incidences, extending an existing approach, random graphs with a given degree distribution, in a way that admits a nontrivial correlation structure in the resulting graphs. The approach unifies a number of existing random graph ensembles within a common general formalism, and allows

Defocus changes the visual contrast sensitivity function, thereby creating a complex curve with local dips and peaks. Since underwater vision in humans is severely defocused, we used optical theory and the phenomenon of spurious resolution to predict how well humans can see in this environment. The values obtained correspond well with experimental measurements of underwater human acuity from earli

New measurements of radiative lifetimes of four 3d⁶5s levelsin Fe II at about 10 eV are presented along with absolute oscillator strengths for twenty 4p-5s transitions involving the four levels. The experimental measurements are compared with two different sets oftheoretical calculations. The lines are of particular interest in the modeling of HLyalpha pumped fluorescence of Fe II in as

The plant hormone auxin plays a critical role in plant development. Central to its function is its distribution in plant tissues, which is, in turn, largely shaped by intercellular polar transport processes. Auxin transport relies on diffusive uptake as well as carrier-mediated transport via influx and efflux carriers. Mathematical models have been used to both refine our theoretical understanding

A widely used method for determination of transition probabilities and oscillator strengths is based on measurements of branching fractions and radiative lifetimes. In the present work the different sources of uncertainty in branching fraction measurements using Fourier transform spectroscopy and lifetime measurements using laser induced fluorescence are discussed. A detailed description is presen

This paper summarizes the recent calculations of the masses and decay constants of the pseudoscalar mesons at the two-loop level, or NNLO, in Partially Quenched Chiral Perturbation Theory (PQxPT). Possible applications include chiral extrapolations of Lattice QCD, as well as the determination of the low-energy constants (LEC:s) of QCD

The thermodynamic properties of single chain polyelectrolyte and protein models are studied using Monte Carlo simulations and (for the polyelectrolyte models) variational calculations and high- and low-temperature expansions. A variational method is used for minimizing Lennard-Jones energies and for estimating end-to-end distances for a rigid Coulomb chain at finite temperatures. A polyelectrolyte