Comparação de genes de virulência de dois isolados de Mycobacterium Bovis sequenciados por plataforma de nova geração.

Comissão organizadora: Grácia Maria Soares Rosinha, Alexandra Rocha de Oliveir, Rodrigo Carvalho Alva

The Pierre Auger Observatory Offline Software

The Pierre Auger Observatory aims to discover the nature and origins of the highest energy cosmic rays. The large number of physicists involved in the project and the diversity of simulation and reconstruction tasks pose a challenge for the offline analysis software, not unlike the challenges confronting software for very large high energy physics experiments. Previously we have reported on the design and implementation of a general purpose but relatively lightweight framework which allows collaborators to contribute algorithms and sequencing instructions to build up the variety of applications they require. In this report, we update the status of this work and describe some of the successes and difficulties encountered over the last few years of use. We explain the machinery used to manage user contributions, to organize the abundance of configuration files, to facilitate multi-format file handling, and to provide access to event and time-dependent detector information residing in various data sources. We also describe the testing procedures used to help maintain stability of the code in the face of a large number of contributions. Foundation classes will also be discussed, including a novel geometry package which allows manipulation of abstract geometrical objects independent of coordinate system choice. © 2008 IOP Publishing Ltd.1193Abraham J et al. [Pierre Auger Collaboration] 2004 Nucl. Instrum. Meth. A 523, 50Ghia, P., Pierre Auger Collaboration (2007) Proc. 30th Intl. Cosmic Ray Conference (ICRC 2007), Merida, Mexico, 3-10 July 2007 Preprint, , arXiv:0706.1212 [astro-phKlages, H., HEAT : Enhancement Telescopes for the Pierre Auger Southern Observatory in Argentina Pierre Auger CollaborationMedina, M., Berisso, M., Allekotte, I., Etchegoyen, A., Tanco, G., Supanitsky, A., (2006) Nucl. Instrum. Meth. A, 566, p. 302AMIGA: A muon detector and infilled array for the Auger Observatory (2007) Proc. 30th Intl. Cosmic Ray Conference (ICRC 2007), Merida, , Etchegoyen A [Pierre Auger Collaboration, Mexico, 3-10 JulyArgirò, S., The offline software framework of the Pierre Auger Observatory (2005), Pierre Auger CollaborationArgiro S et al. 2007 Nucl. Instr. and Meth. A, doi:10.1016/j.nima.2007.07.010 Preprint arXiv:0707.1652 [astro-ph]http://www.w3.org/XMLhttp://tools.ietf.org/html/rfc3986http://www.w3.org/TR/xpathhttp:subversion.tigris.orghttp://www.gnu.org/software/autoconfhttp://www.gnu.org/software/ automakehttp://www.gnu.org/software/libtoolhttp://www.w3.org/XML/SchemaRivest, R., http://www.faqs.org/rfcsPatton, S., Concrete uses of XML in software development and data analysis (2003) Proc. Intl. Conf. on Computing in High-Energy Physics and Nuclear Physics (CHEP 2003), , See for example, La Jolla, California, USA 24-28 MarchSciutto, S., Preprint arXiv:astro-ph/9911331Heck, D., Knapp, J., Capdevielle, J., Schatz, G., Thuow, T., (1998) Report FZKA, , 6019Bergmann, T., (2007) Astropart. Phys, 26, p. 420Drescher, H., Farrar, G., Bleicher, M., Reiter, M., Soff, S., Stoecker, H., (2003) Phys.Rev, D67, p. 116001http://root.cern.chhttp://dev.mysql.comhttp://xml.apache.orgJosuttis, N., (1999) The C++ Standard Library, , see for example, Addison-Wesley, ISBN 0-201-37926-0http://www.w3.org/TR/REC-xmlhttp://cppunit.sourceforge.net/doc/1.8.0http://buildbot.sourceforge.nethttp://www.boost.orghttp://proj-clhep.web.cern.ch/proj-clhephttp://geant4.cern.ch/Agostinelli S et al. 2003 Nucl. Instrum. Meth. A 506, 250http://www.python.orgChudoba, J., Simulations and Offline Data Processing for the Auger Experiment Presented at EGEE User Forum, , http://indico.cern.ch/conferenceDisplay.py?confId=7247, Manchester, UK, 9-11 May 200

Advanced functionality for radio analysis in the Offline software framework of the Pierre Auger Observatory

The advent of the Auger Engineering Radio Array (AERA) necessitates the development of a powerful framework for the analysis of radio measurements of cosmic ray air showers. As AERA performs "radio-hybrid" measurements of air shower radio emission in coincidence with the surface particle detectors and fluorescence telescopes of the Pierre Auger Observatory, the radio analysis functionality had to be incorporated in the existing hybrid analysis solutions for fluoresence and surface detector data. This goal has been achieved in a natural way by extending the existing Auger Offline software framework with radio functionality. In this article, we lay out the design, highlights and features of the radio extension implemented in the Auger Offline framework. Its functionality has achieved a high degree of sophistication and offers advanced features such as vectorial reconstruction of the electric field, advanced signal processing algorithms, a transparent and efficient handling of FFTs, a very detailed simulation of detector effects, and the read-in of multiple data formats including data from various radio simulation codes. The source code of this radio functionality can be made available to interested parties on request.Comment: accepted for publication in NIM A, 13 pages, minor corrections to author list and references in v

Observation of associated near-side and away-side long-range correlations in √sNN=5.02 TeV proton-lead collisions with the ATLAS detector

Two-particle correlations in relative azimuthal angle (Δϕ) and pseudorapidity (Δη) are measured in √sNN=5.02  TeV p+Pb collisions using the ATLAS detector at the LHC. The measurements are performed using approximately 1  μb-1 of data as a function of transverse momentum (pT) and the transverse energy (ΣETPb) summed over 3.1<η<4.9 in the direction of the Pb beam. The correlation function, constructed from charged particles, exhibits a long-range (2<|Δη|<5) “near-side” (Δϕ∼0) correlation that grows rapidly with increasing ΣETPb. A long-range “away-side” (Δϕ∼π) correlation, obtained by subtracting the expected contributions from recoiling dijets and other sources estimated using events with small ΣETPb, is found to match the near-side correlation in magnitude, shape (in Δη and Δϕ) and ΣETPb dependence. The resultant Δϕ correlation is approximately symmetric about π/2, and is consistent with a dominant cos⁡2Δϕ modulation for all ΣETPb ranges and particle pT

Measurement of the inclusive and dijet cross-sections of b-jets in pp collisions at sqrt(s) = 7 TeV with the ATLAS detector

The inclusive and dijet production cross-sections have been measured for jets containing b-hadrons (b-jets) in proton-proton collisions at a centre-of-mass energy of sqrt(s) = 7 TeV, using the ATLAS detector at the LHC. The measurements use data corresponding to an integrated luminosity of 34 pb^-1. The b-jets are identified using either a lifetime-based method, where secondary decay vertices of b-hadrons in jets are reconstructed using information from the tracking detectors, or a muon-based method where the presence of a muon is used to identify semileptonic decays of b-hadrons inside jets. The inclusive b-jet cross-section is measured as a function of transverse momentum in the range 20 < pT < 400 GeV and rapidity in the range |y| < 2.1. The bbbar-dijet cross-section is measured as a function of the dijet invariant mass in the range 110 < m_jj < 760 GeV, the azimuthal angle difference between the two jets and the angular variable chi in two dijet mass regions. The results are compared with next-to-leading-order QCD predictions. Good agreement is observed between the measured cross-sections and the predictions obtained using POWHEG + Pythia. MC@NLO + Herwig shows good agreement with the measured bbbar-dijet cross-section. However, it does not reproduce the measured inclusive cross-section well, particularly for central b-jets with large transverse momenta.Comment: 10 pages plus author list (21 pages total), 8 figures, 1 table, final version published in European Physical Journal

Jet energy measurement with the ATLAS detector in proton-proton collisions at root s=7 TeV

The jet energy scale and its systematic uncertainty are determined for jets measured with the ATLAS detector at the LHC in proton-proton collision data at a centre-of-mass energy of √s = 7TeV corresponding to an integrated luminosity of 38 pb-1. Jets are reconstructed with the anti-kt algorithm with distance parameters R=0. 4 or R=0. 6. Jet energy and angle corrections are determined from Monte Carlo simulations to calibrate jets with transverse momenta pT≥20 GeV and pseudorapidities {pipe}η{pipe}<4. 5. The jet energy systematic uncertainty is estimated using the single isolated hadron response measured in situ and in test-beams, exploiting the transverse momentum balance between central and forward jets in events with dijet topologies and studying systematic variations in Monte Carlo simulations. The jet energy uncertainty is less than 2. 5 % in the central calorimeter region ({pipe}η{pipe}<0. 8) for jets with 60≤pT<800 GeV, and is maximally 14 % for pT<30 GeV in the most forward region 3. 2≤{pipe}η{pipe}<4. 5. The jet energy is validated for jet transverse momenta up to 1 TeV to the level of a few percent using several in situ techniques by comparing a well-known reference such as the recoiling photon pT, the sum of the transverse momenta of tracks associated to the jet, or a system of low-pT jets recoiling against a high-pT jet. More sophisticated jet calibration schemes are presented based on calorimeter cell energy density weighting or hadronic properties of jets, aiming for an improved jet energy resolution and a reduced flavour dependence of the jet response. The systematic uncertainty of the jet energy determined from a combination of in situ techniques is consistent with the one derived from single hadron response measurements over a wide kinematic range. The nominal corrections and uncertainties are derived for isolated jets in an inclusive sample of high-pT jets. Special cases such as event topologies with close-by jets, or selections of samples with an enhanced content of jets originating from light quarks, heavy quarks or gluons are also discussed and the corresponding uncertainties are determined. © 2013 CERN for the benefit of the ATLAS collaboration

Search for First Harmonic Modulation in the Right Ascension Distribution of Cosmic Rays Detected at the Pierre Auger Observatory

We present the results of searches for dipolar-type anisotropies in different energy ranges above $2.5\times 10^{17}$ eV with the surface detector array of the Pierre Auger Observatory, reporting on both the phase and the amplitude measurements of the first harmonic modulation in the right-ascension distribution. Upper limits on the amplitudes are obtained, which provide the most stringent bounds at present, being below 2% at 99% $C.L.$ for EeV energies. We also compare our results to those of previous experiments as well as with some theoretical expectations.Comment: 28 pages, 11 figure

Search for R-parity-violating supersymmetry in events with four or more leptons in sqrt(s) =7 TeV pp collisions with the ATLAS detector

A search for new phenomena in final states with four or more leptons (electrons or muons) is presented. The analysis is based on 4.7 fb−1 of $\sqrt{s}=7\;\mathrm{TeV}$ proton-proton collisions delivered by the Large Hadron Collider and recorded with the ATLAS detector. Observations are consistent with Standard Model expectations in two signal regions: one that requires moderate values of missing transverse momentum and another that requires large effective mass. The results are interpreted in a simplified model of R-parity-violating supersymmetry in which a 95% CL exclusion region is set for charged wino masses up to 540 GeV. In an R-parity-violating MSUGRA/CMSSM model, values of m 1/2 up to 820 GeV are excluded for 10 < tan β < 40

Search for high-mass resonances decaying to dilepton final states in pp collisions at s√=7 TeV with the ATLAS detector

The ATLAS detector at the Large Hadron Collider is used to search for high-mass resonances decaying to an electron-positron pair or a muon-antimuon pair. The search is sensitive to heavy neutral Z′ gauge bosons, Randall-Sundrum gravitons, Z * bosons, techni-mesons, Kaluza-Klein Z/γ bosons, and bosons predicted by Torsion models. Results are presented based on an analysis of pp collisions at a center-of-mass energy of 7 TeV corresponding to an integrated luminosity of 4.9 fb−1 in the e + e − channel and 5.0 fb−1 in the μ + μ −channel. A Z ′ boson with Standard Model-like couplings is excluded at 95 % confidence level for masses below 2.22 TeV. A Randall-Sundrum graviton with coupling k/MPl=0.1 is excluded at 95 % confidence level for masses below 2.16 TeV. Limits on the other models are also presented, including Technicolor and Minimal Z′ Models

Search for the neutral Higgs bosons of the minimal supersymmetric standard model in pp collisions at root s=7 TeV with the ATLAS detector

A search for neutral Higgs bosons of the Minimal Supersymmetric Standard Model (MSSM) is reported. The analysis is based on a sample of proton-proton collisions at a centre-of-mass energy of 7TeV recorded with the ATLAS detector at the Large Hadron Collider. The data were recorded in 2011 and correspond to an integrated luminosity of 4.7 fb-1 to 4.8 fb-1. Higgs boson decays into oppositely-charged muon or τ lepton pairs are considered for final states requiring either the presence or absence of b-jets. No statistically significant excess over the expected background is observed and exclusion limits at the 95% confidence level are derived. The exclusion limits are for the production cross-section of a generic neutral Higgs boson, φ, as a function of the Higgs boson mass and for h/A/H production in the MSSM as a function of the parameters mA and tan β in the mhmax scenario for mA in the range of 90GeV to 500 GeV. Copyright CERN