A Parallel General Purpose Multi-Objective Optimization Framework, with Application to Beam Dynamics

Particle accelerators are invaluable tools for research in the basic and applied sciences, in fields such as materials science, chemistry, the biosciences, particle physics, nuclear physics and medicine. The design, commissioning, and operation of accelerator facilities is a non-trivial task, due to the large number of control parameters and the complex interplay of several conflicting design goals. We propose to tackle this problem by means of multi-objective optimization algorithms which also facilitate a parallel deployment. In order to compute solutions in a meaningful time frame a fast and scalable software framework is required. In this paper, we present the implementation of such a general-purpose framework for simulation-based multi-objective optimization methods that allows the automatic investigation of optimal sets of machine parameters. The implementation is based on a master/slave paradigm, employing several masters that govern a set of slaves executing simulations and performing optimization tasks. Using evolutionary algorithms as the optimizer and OPAL as the forward solver, validation experiments and results of multi-objective optimization problems in the domain of beam dynamics are presented. The high charge beam line at the Argonne Wakefield Accelerator Facility was used as the beam dynamics model. The 3D beam size, transverse momentum, and energy spread were optimized

Giant Liquid Argon Observatory for Proton Decay, Neutrino Astrophysics and CP-violation in the Lepton Sector (GLACIER)

GLACIER (Giant Liquid Argon Charge Imaging ExpeRiment) is a large underground observatory for proton decay search, neutrino astrophysics and CP-violation studies in the lepton sector. Possible underground sites are studied within the FP7 LAGUNA project (Europe) and along the JPARC neutrino beam in collaboration with KEK (Japan). The concept is scalable to very large masses.Comment: 4 pages, 1 figure, Contribution to the Workshop "European Strategy for Future Neutrino Physics", CERN, Oct. 200

First-principles study of the dipole layer formation at metal-organic interfaces

We study the dipole layer formed at metal-organic interfaces by means of first-principles calculations. Interface dipoles are monitored by calculating the work function change of Au, Ag, Al, Mg and Ca surfaces upon adsorption of a monolayer of PTCDA (3,4,9,10-perylene-tetra-carboxylic-di-anhydride), perylene or benzene molecules. Adsorption of PTCDA leads to pinning of the work function for a range of metal substrates. It gives interface dipoles that compensate for the difference in the clean metal work functions, leading to a nearly constant work function. In contrast, adsorption of benzene always results in a decrease of the work function, which is relatively constant for all metal substrates. Both effects are found in perylene, where adsorption on low work function metals gives work function pinning, whereas adsorption on high work function metals gives work function lowering. The work function changes upon adsorption are analyzed and interpreted in terms of two competing effects. If the molecule and substrate interact weakly, the molecule pushes electrons into the surface, which lowers the work function. If the metal work function is sufficiently low with respect to the unoccupied states of the molecule, electrons are donated into these states, which increases the binding and the work function.Comment: 18 pages, 12 figures, 5 table

Towards a liquid Argon TPC without evacuation: filling of a 6 m^3 vessel with argon gas from air to ppm impurities concentration through flushing

In this paper we present a successful experimental test of filling a volume of 6 m$^3$ with argon gas, starting from normal ambient air and reducing the impurities content down to few parts per million (ppm) oxygen equivalent. This level of contamination was directly monitored measuring the slow component of the scintillation light of the Ar gas, which is sensitive to {\it all} sources of impurities affecting directly the argon scintillation.Comment: 9 pages, 6 figures, to appear in Proc. 1st International Workshop towards the Giant Liquid Argon Charge Imaging Experiment (GLA2010), Tsukuba, March 201

A new diagnostic algorithm for Burkitt and diffuse large B-cell lymphomas based on the expression of CSE1L and STAT3 and on MYC rearrangement predicts outcome

Background Aggressive mature B-cell non-Hodgkin's lymphomas (BCL) sharing features of Burkitt's lymphoma (BL) and diffuse large B-cell lymphoma (DLBCL) (intermediate BL/DLBCL) but deviating with respect to one or more characteristics are increasingly recognized. The limited knowledge about these biologically heterogeneous lymphomas hampers their assignment to a known entity, raising incertitude about optimal treatment approaches. We therefore searched for discriminative, prognostic, and predictive factors for their better characterization. Patients and methods We analyzed 242 cytogenetically defined aggressive mature BCL for differential protein expression. Marker selection was based on recent gene-expression profile studies. Predictive models for diagnosis were established and validated by a different set of lymphomas. Results CSE1L- and inhibitor of DNA binding-3 (ID3)-overexpression was associated with the diagnosis of BL and signal transduction and transcription-3 (STAT3) with DLBCL (P<0.001 for all markers). All three markers were associated with patient outcome in DLBCL. A new algorithm discriminating BL from DLBCL emerged, including the expression of CSE1L, STAT3, and MYC translocation. This ‘new classifier' enabled the identification of patients with intermediate BL/DLBCL who benefited from intensive chemotherapy regimens. Conclusion The proposed algorithm, which is based on markers with reliable staining properties for routine diagnostics, represents a novel valid tool in separating BL from DLBCL. Most interestingly, it allows segregating intermediate BL/DLBCL into groups with different treatment requirement

ArDM: first results from underground commissioning

The Argon Dark Matter experiment is a ton-scale double phase argon Time Projection Chamber designed for direct Dark Matter searches. It combines the detection of scintillation light together with the ionisation charge in order to discriminate the background (electron recoils) from the WIMP signals (nuclear recoils). After a successful operation on surface at CERN, the detector was recently installed in the underground Laboratorio Subterr\'aneo de Canfranc, and the commissioning phase is ongoing. We describe the status of the installation and present first results from data collected underground with the detector filled with gas argon at room temperature.Comment: 6 pages, 3 figures, Light Detection In Noble Elements (LIDINE 2013

Improving the turnaround time of molecular profiling for advanced non-small cell lung cancer: Outcome of a new algorithm integrating multiple approaches

BACKGROUND Molecular tumor profiling to identify oncogenic drivers and actionable mutations has a profound impact on how lung cancer is treated. Especially in the subgroup of non-small cell lung cancer (NSCLC), molecular testing for certain mutations is crucial in daily clinical practice and is recommended by international guidelines. To date, a standardized approach to identify druggable genetic alterations are lacking. We have developed and implemented a new diagnostic algorithm to harmonize the molecular testing of NSCLC. PATIENTS AND METHODS In this retrospective analysis, we reviewed 119 patients diagnosed with NSCLC at the University Hospital Zurich. Tumor samples were analyzed using our standardized diagnostic algorithm: After the histological diagnosis was made, tissue samples were further analyzed by immunohistochemical stainings as well as the real-time PCR test Idylla™. Extracted DNA was further utilized for comprehensive genomic profiling (FoundationOne®CDx, F1CDx). RESULTS Out of the 119 patients were included in this study, 100 patients were diagnosed with non-squamous NSCLC (nsqNSCLC) and 19 with squamous NSCLC (sqNSCLC). The samples from the nsqNSCLC patients underwent testing by Idylla™ and were evaluated by immunohistochemistry (IHC). F1CDx analysis was run on 67 samples and 46 potentially actionable genomic alterations were detected. Ten patients received the indicated targeted treatment. The median time to test results was 4 days for the Idylla test, 5 days for IHC and 13 days for the F1CDx. CONCLUSION In patients with NSCLC, the implementation of a standardized molecular testing algorithm provided information on predictive markers for NSCLC within a few working days. The implementation of broader genomic profiling led to the identification of actionable targets, which would otherwise not have been discovered