FISH: A 3D parallel MHD code for astrophysical applications

FISH is a fast and simple ideal magneto-hydrodynamics code that scales to ~10 000 processes for a Cartesian computational domain of ~1000^3 cells. The simplicity of FISH has been achieved by the rigorous application of the operator splitting technique, while second order accuracy is maintained by the symmetric ordering of the operators. Between directional sweeps, the three-dimensional data is rotated in memory so that the sweep is always performed in a cache-efficient way along the direction of contiguous memory. Hence, the code only requires a one-dimensional description of the conservation equations to be solved. This approach also enable an elegant novel parallelisation of the code that is based on persistent communications with MPI for cubic domain decomposition on machines with distributed memory. This scheme is then combined with an additional OpenMP parallelisation of different sweeps that can take advantage of clusters of shared memory. We document the detailed implementation of a second order TVD advection scheme based on flux reconstruction. The magnetic fields are evolved by a constrained transport scheme. We show that the subtraction of a simple estimate of the hydrostatic gradient from the total gradients can significantly reduce the dissipation of the advection scheme in simulations of gravitationally bound hydrostatic objects. Through its simplicity and efficiency, FISH is as well-suited for hydrodynamics classes as for large-scale astrophysical simulations on high-performance computer clusters. In preparation for the release of a public version, we demonstrate the performance of FISH in a suite of astrophysically orientated test cases.Comment: 27 pages, 11 figure

Cell line-specific efficacy of thermoradiotherapy in human and canine cancer cells in vitro

Objective Aims were to investigate sensitivity of various human and canine cancer cell lines to hyperthermia and the influence of particular treatment conditions, and to analyze the DNA-damage response and mode of cell death in cell line radiosensitized by hyperthermia. Additionally, we were interested in the involvement of HSP70 in radiosensitization. Methods Radiosensitization by hyperthermia was determined in a panel of human and canine cancer cell lines using clonogenic cell survival assay, as well as levels of heat shock proteins (HSPs) using immunoblotting. The influence of the hyperthermia-radiotherapy time gap, different temperatures and the order of treatments on clonogenicity of hyperthermia-sensitive A549 cells was investigated. Additionally, DNA damage and cell death were assessed by Comet assay and an apoptosis/necrosis assay. Further we induced transient knockdown in A549 cells to test HSP70’s involvement in radiosensitization. Results Out of eight cell lines tested, only two (A549 and Abrams) showed significant decrease in clonogenic cell survival when pre-treated with hyperthermia at 42˚C. Strong induction of HSP70 upon thermoradiotherapy (HT-RT) treatment was found in all cell lines. Transient knockdown of HSP70 in A549 cells did not result in decrease of clonogenic cell survival in response to HT-RT. Conclusion Tumor cell-type, temperature and order of treatment play an important role in radiosensitization by hyperthermia. However, hyperthermia has limited potency to radiosensitize canine cancer cells grown in a 2D cell culture setting presented here. DNA damage and apoptosis/necrosis did not increase upon combined treatment and cytosolic levels of HSP70 appear not to play critical role in the radiosensitization of A549 cells

A transition from river networks to scale-free networks

A spatial network is constructed on a two dimensional space where the nodes are geometrical points located at randomly distributed positions which are labeled sequentially in increasing order of one of their co-ordinates. Starting with $N$ such points the network is grown by including them one by one according to the serial number into the growing network. The $t$-th point is attached to the $i$-th node of the network using the probability: $\pi_i(t) \sim k_i(t)\ell_{ti}^{\alpha}$ where $k_i(t)$ is the degree of the $i$-th node and $\ell_{ti}$ is the Euclidean distance between the points $t$ and $i$. Here $\alpha$ is a continuously tunable parameter and while for $\alpha=0$ one gets the simple Barab\'asi-Albert network, the case for $\alpha \to -\infty$ corresponds to the spatially continuous version of the well known Scheidegger's river network problem. The modulating parameter $\alpha$ is tuned to study the transition between the two different critical behaviors at a specific value $\alpha_c$ which we numerically estimate to be -2.Comment: 5 pages, 5 figur

On D0-branes in Gepner models

We show why and when D0-branes at the Gepner point of Calabi-Yau manifolds given as Fermat hypersurfaces exist.Comment: 22 pages, substantial improvements in sections 2 and 3, references added, version to be publishe

Gastric intramucosal pH-guided therapy in patients after elective repair of infrarenal abdominal aneurysms: is it beneficial?

Objective: To determine if gastric intramucosal pH (pHi)-guided therapy reduces the number of complications and length of stay in the intensive care unit (ICU) or the hospital after elective repair of infrarenal abdominal aortic aneurysms. Design: Prospective, randomized study. Setting: Surgical intensive care unit (SICU) of a University Hospital. Patients: Fifty-five consecutive patients randomized to group 1 (pHi-guided therapy) or to group 2 (control). Interventions: Patients of group 1 with a pHi of lower than 7.32 were treated by means of a prospective protocol in order to increase their pHi to 7.32 or more. Measurements and results: pHi was determined in both groups on admission to the SICU and thereafter at 6-h intervals. In group 2, the treating physicians were blinded for the pHi values. Complications, APACHE II scores, duration of endotracheal intubation, fluid and vasoactive drug treatment, treatment with vasoactive drugs, length of stay in the SICU and in the hospital and hospital mortality were recorded. There were no differences between groups in terms of the incidence of complications. We found no differences in APACHE II scores on admission, the duration of intubation, SICU or hospital stay, or hospital mortality. In the two groups the incidence of pHi values lower than 7.32 on admission to the SICU was comparable (41 % and 42 % in groups 1 and 2, respectively). Patients with pHi lower than 7.32 had more major complications during SICU stay (p<0.05), and periods more than 10 h of persistently low pHi values (< 7.32) were associated with a higher incidence of SICU complications (p<0.01). Conclusions: Low pHi values (<7.32) and their persistence are predictors of major complications. Treatment to elevate low pHi values does not improve postoperative outcome. Based on these data, we cannot recommend the routine use of gastric tonometers for pHi-guided therapy in these patients. Further studies are warranted to determine adequate treatment of low pHi values that results in beneficial effects on the patient's postoperative course and outcom