The CEDAR Project

We describe the plans and objectives of the CEDAR project (Combined e-Science Data Analysis Resource for High Energy Physics) newly funded by the PPARC e-Science programme in the UK. CEDAR will combine the strengths of the well established and widely used HEPDATA database of HEP data and the innovative JetWeb data/Monte Carlo comparison facility, built on the HZTOOL package, and will exploit developing grid technology. The current status and future plans of both of these individual sub-projects within the CEDAR framework are described, showing how they will cohesively provide (a) an extensive archive of Reaction Data, (b) validation and tuning of Monte Carlo programs against these reaction data sets, and (c) a validated code repository for a wide range of HEP code such as parton distribution functions and other calculation codes used by particle physicists. Once established it is envisaged CEDAR will become an important Grid tool used by LHC experimentalists in their analyses and may well serve as a model in other branches of science where there is a need to compare data and complex simulations.Comment: 4 pages, 4 postscript figures, uses CHEP2004.cls. Presented at Computing in High-Energy Physics (CHEP'04), Interlaken, Switzerland, 27th September - 1st October 200

Expressed sequence tags from the oomycete fish pathogen Saprolegnia parasitica reveal putative virulence factors

Peer reviewedPublisher PD

A metastatic secretory gastric plasmacytoma with aberrant CD3 expression in a dog

A 10-year-old crossbred dog was presented with a 6-week history of hematemesis, melena, anorexia, and lethargy. Clinical evaluation revealed a gastric mass with a regional lymphadenomegaly as well as a monoclonal gammopathy manifesting as hyperglobulinemia. Cytologic and histopathologic analyses were consistent with a round cell neoplasm; neoplastic cells showed nuclear immunoreactivity for MUM1 and diffuse cytoplasmic reactivity for CD3. Polymerase chain reactions performed on fixed and fresh tissue identified a clonal rearrangement with an IgH primer set. An extramedullary plasmacytoma (EMP) was confirmed by cellular morphology and molecular diagnostics. Following an objective response to chemotherapy, the dog was euthanized 8 months after diagnosis, and a postmortem examination confirmed the clinical findings. This is the first reported case of a monoclonal gammopathy secondary to a gastric EMP coupled with aberrant expression of CD3 in an aggressive plasmacytic tumor, and highlights the utility of molecular diagnostics for classifying atypical hemolymphoid neoplasms

Low Temperature Physics

Contains reports on one research project

Reducing Constraints on Quantum Computer Design by Encoded Selective Recoupling

The requirement of performing both single-qubit and two-qubit operations in the implementation of universal quantum logic often leads to very demanding constraints on quantum computer design. We show here how to eliminate the need for single-qubit operations in a large subset of quantum computer proposals: those governed by isotropic and XXZ,XY-type anisotropic exchange interactions. Our method employs an encoding of one logical qubit into two physical qubits, while logic operations are performed using an analogue of the NMR selective recoupling method.Comment: 5 pages, 1 table, no figures. Published versio

Epitaxial Growth of La1/3_{1/3}Sr2/3_{2/3}FeO3_3 thin films by laser ablation

We report on the synthesis of high quality La$_{1/3}$Sr$_{2/3}$FeO$_3$ (LSFO) thin films using the pulsed laser deposition technique on both SrTiO$_3$ (STO) and LaAlO$_3$ (LAO) substrates (100)-oriented. From X-Ray diffraction (XRD) studies, we find that the films have an out-of-plane lattice parameter around 0.3865nm, almost independent of the substrate (i.e. the nature of the strains). The transport properties reveal that, while LSFO films deposited on STO exhibit an anomaly in the resistivity vs temperature at 180K (corresponding to the charge-ordered transition and associated with a transition from a paramagnetic to an antiferromagnetic state), the films grown on LAO display a very small magnetoresistance behavior and present an hysteresis around 270K under the application of a 4T magnetic field. The changes in transport properties between both substrates are discussed and compared with the corresponding single crystals.Comment: 9 pages, 4 figure

Optimisation and validation of a PCR for Antigen Receptor Rearrangement (PARR) assay to detect clonality in canine lymphoid malignancies

PCR for antigen receptor gene rearrangements (PARR) analysis is being increasingly used to assist diagnosis of canine lymphoma. In this study, PARR was carried out on consecutive samples received as part of routine diagnostic practice from 271 patients: 195 with lymphoid malignancies, 53 with reactive conditions and 23 with other neoplasms. Initially, published primer sets were used but later minor primer modifications were introduced and primers were rationalised to give a PARR panel that provides a good compromise between sensitivity and cost. Results were compared to diagnoses made by histology or cytology, coupled with immunophenotyping by flow cytometry or immunohistochemistry where possible. After exclusion of 11 poor quality samples, 230/260 (88%) gave a clear result with 162/163 (99%) of samples classified as clonal and 56/67 (84%) classified as polyclonal giving results concordant with the cytological/histological diagnosis. Among 30 samples with equivocal results, 21 had clonal peaks in a polyclonal background and nine showed little amplification. These were from patients with a range of neoplastic and non-neoplastic conditions emphasising the need to interpret such results carefully in concert with other diagnostic tests. The combination of primer sets used in this study resulted in a robust, highly specific and sensitive assay for detecting clonality

Consistent thermodynamics for spin echoes

Spin-echo experiments are often said to constitute an instant of anti-thermodynamic behavior in a concrete physical system that violates the second law of thermodynamics. We argue that a proper thermodynamic treatment of the effect should take into account the correlations between the spin and translational degrees of freedom of the molecules. To this end, we construct an entropy functional using Boltzmann macrostates that incorporates both spin and translational degrees of freedom. With this definition there is nothing special in the thermodynamics of spin echoes: dephasing corresponds to Hamiltonian evolution and leaves the entropy unchanged; dissipation increases the entropy. In particular, there is no phase of entropy decrease in the echo. We also discuss the definition of macrostates from the underlying quantum theory and we show that the decay of net magnetization provides a faithful measure of entropy change.Comment: 15 pages, 2 figs. Changed figures, version to appear in PR

Low Temperature Physics

Contains research objectives and reports on one research project