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Motivation: The topic of this paper is the estimation of alignments and mutation rates based on stochastic sequence-evolution models that allow insertions and deletions of subsequences ("fragments") and not just single bases. The model we propose is a variant of a model introduced by Thorne, Kishino, and Felsenstein (1992). The computational tractability of the model depends on certain restrictions in the insertion/deletion process; possible effects we discuss.
Results: The process of fragment insertion and deletion in the sequence-evolution model induces a hidden Markov structure at the level of alignments and thus makes possible efficient statistical alignment algorithms. As an example we apply a sampling procedure to assess the variability in alignment and mutation parameter estimates for HVR1 sequences of human and orangutan, improving results of previous work. Simulation studies give evidence that estimation methods based on the proposed model also give satisfactory results when applied to data for which the restrictions in the insertion/deletion process do not hold.
Availability: The source code of the software for sampling alignments and mutation rates for a pair of DNA sequences according to the fragment insertion and deletion model is freely available from www.math.uni-frankfurt.de/~stoch/software/mcmcsalut under the terms of the GNU public license (GPL, 2000).
Qualifizierung zum eProf? : Medienkompetenz und Qualifizierungsstrategien für Hochschullehrende
(2002)
Welche Kompetenzen benötigen Hochschullehrende, um neuen Medien in der Lehre einzusetzen? In diesem Beitrag soll beleuchtet werden, o welche Rolle haben Hochschullehrende beim Einsatzes neuer Medien in der Lehre, o welche Aufgaben und Anforderungen kommen in diesem Kontext auf sie zu und o welche Qualifizierungs- und Beratungsangebote sind dabei geeignet? Zur Beantwortung dieser Fragen wurde an verschiedenen Hochschulen untersucht, welche Aufgaben beim dem Einsatz neuer Medien bei den Lehrenden verbleiben und welche von internen und externen Anbietern (auch Rechen- und Medienzentren) übernommen werden sowie welche Qualifikationen Lehrende benötigen, um diesen Prozess zu steuern, entsprechende Entscheidungen treffen und Konzepte entwickeln zu können, um das medial gestützte Lehrangebot zu pflegen und zu betreuen. Dieser Beitrag stellt die Ergebnisse der Untersuchung zusammen.
A novel mechanism of H0 and strangelet production in hadronic interactions within the Gribov-Regge approach is presented. In contrast to traditional distillation approaches, here the production of multiple (strange) quark bags does not require large baryon densities or a QGP. The production cross section increases with center of mass energy. Rapidity and transverse momentum distributions of the H 0 are predicted for pp collisions at E_lab = 160 AGeV (SPS) and \sqrt s = 200 AGeV (RHIC). The predicted total H 0 multiplicities are of order of the Omega-baryon yield and can be accessed by the NA49 and the STAR experiments.
The transverse mass spectra of Omega, J/psi and psi' in Pb+Pb collisions at 158 AGeV are studied within a hydrodynamical model of the quark gluon plasma expansion and hadronization. The model reproduces the existing data with the common hadronization parameters: temperature T=T_H = 170 MeV and average collective transverse velocity v_T = 0.2.
The transverse mass spectra of J/psi and psi' mesons and Omega hyperons produced in central Au+Au collisions at RHIC energies are discussed within a statistical model used successfully for the interpretation of the SPS results. The comparison of the presented model with the future RHIC data should serve as a further crucial test of the hypothesis of statistical production of charmonia at hadronization. Finally, in case of validity, the approach should allow to estimate the mean transverse flow velocity at the quark gluon plasma hadronization.
Experiment NA49 at the Cern SPS uses a large acceptance detector for a systematic study of particle yields and correlations in nucleus-nucleus, nucleon-nucleus and nucleon-nucleon collisions. Preliminary results for Pb+Pb collisions at 40, 80 and 158 A*GeV beam energy are shown and compared to measurements at lower and higher energies.
The large acceptance and high momentum resolution as well as the significant particle identification capabilities of the NA49 experiment at the CERN SPS allow for a broad study of fluctuations and correlations in hadronic interactions. In the first part recent results on event-by-event charge and p_t fluctuations are presented. Charge fluctuations in central Pb+Pb reactions are investigated at three different beam energies (40, 80, and 158 AGeV), while for the p_t fluctuations the focus is put on the system size dependence at 158 AGeV. In the second part recent results on Bose Einstein correlations of h-h- pairs in minimum bias Pb+Pb reactions at 40 and 158 AGeV, as well as of K+K+ and K-K- pairs in central Pb+Pb collisions at 158 AGeV are shown. Additionally, other types of two particle correlations, namely pi p, Lambda p, and Lambda Lambda correlations, have been measured by the NA49 experiment. Finally, results on the energy and system size dependence of deuteron coalescence are discussed.
Rapidity distributions for $\Lambda$ and $\bar{\Lambda}$ hyperons in central Pb-Pb collisions at 40, 80 and 158 A$\cdot$GeV and for ${\rm K}_{s}^{0}$ mesons at 158 A$\cdot$GeV are presented. The lambda multiplicities are studied as a function of collision energy together with AGS and RHIC measurements and compared to model predictions. A different energy dependence of the $\Lambda/\pi$ and $\bar{\Lambda}/\pi$ is observed. The $\bar{\Lambda}/\Lambda$ ratio shows a steep increase with collision energy. Evidence for a $\bar{\Lambda}/\bar{\rm p}$ ratio greater than 1 is found at 40 A$\cdot$GeV.
Bose-Einstein correlations of charged kaons were measured near mid-rapidity in central Pb+Pb collisions at 158 A GeV by the NA49 experiment at the CERN SPS. Source radii were extracted using the Yano-Koonin-Podgoretsky and Bertsch-Pratt parameterizations. The results are compared to published pion data. The measured m_perp dependence for kaons and pions is consistent with collective transverse expansion of the source and a freeze-out time of about 9.5 fm.
Rapidity distributions for Lambda and anti-Lambda hyperons in central Pb-Pb collisions at 40, 80 and 158 AGeV and for K 0 s mesons at 158 AGeV are presented. The lambda multiplicities are studied as a function of collision energy together with AGS and RHIC measurements and compared to model predictions. A different energy dependence of the Lambda/pi and anti-Lambda/pi is observed. The anti-Lambda/Lambda ratio shows a steep increase with collision energy. Evidence for a anti-Lambda/anti-p ratio greater than 1 is found at 40 AGeV.