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- Statistical alignment based on fragment insertion and deletion models (2002)
- 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).

- Towards a dependency-oriented evaluation for partial parsing (2002)
- Quantitative evaluation of parsers has traditionally centered around the PARSEVAL measures of crossing brackets, (labeled) precision, and (labeled) recall. However, it is well known that these measures do not give an accurate picture of the quality of the parsers output. Furthermore, we will show that they are especially unsuited for partial parsers. In recent years, research has concentrated on dependencybased evaluation measures. We will show in this paper that such a dependency-based evaluation scheme is particularly suitable for partial parsers. TüBa-D, the treebank used here for evaluation, contains all the necessary dependency information so that the conversion of trees into a dependency structure does not have to rely on heuristics. Therefore, the dependency representations are not only reliable, they are also linguistically motivated and can be used for linguistic purposes.

- A hybrid architecture for robust parsing of german (2002)
- This paper provides an overview of current research on a hybrid and robust parsing architecture for the morphological, syntactic and semantic annotation of German text corpora. The novel contribution of this research lies not in the individual parsing modules, each of which relies on state-of-the-art algorithms and techniques. Rather what is new about the present approach is the combination of these modules into a single architecture. This combination provides a means to significantly optimize the performance of each component, resulting in an increased accuracy of annotation.

- Phase transition to hyperon matter in neutron stars (2002)
- Recent progress in the understanding of the high density phase of neutron stars advances the view that a substantial fraction of the matter consists of hyperons. The possible impacts of a highly attractive interaction between hyperons on the properties of compact stars are investigated. We find that a hadronic equation of state with hyperons allows for a first order phase transition to hyperonic matter. The corresponding hyperon stars can have rather small radii of R ~ 8 km. PACS: 26.60+c, 21.65+f, 97.60.Gb, 97.60.Jd

- Space-time evolution and HBT analysis of relativistic heavy ion collisions in a chiral SU(3) x SU(3) model (2002)
- The space-time dynamics and pion-HBT radii in central heavy ion-collisions at CERN-SPS and BNL-RHIC are investigated within a hydrodynamic simulation. The dependence of the dynamics and the HBT-parameters on the EoS is studied with different parametrizations of a chiral SU(3) sigma omega model. The selfconsistent collective expansion includes the e ects of e ective hadron masses, generated by the nonstrange and strange scalar condensates. Different chiral EoS show di erent types of phase transitions and even a crossover. The influence of the order of the phase transition and of the latent heat on the space-time dynamics and pion-HBT radii is studied. A small latent heat, i.e. a weak first-order chiral phase transition, or a smooth crossover lead to distinctly di erent HBT predictions than a strong first order phase transition. A quantitative description of the data, both at SPS energies as well as at RHIC energies, appears di cult to achieve within the ideal hydrodynamic approach using the SU(3) chiral EoS. A strong first-order quasi-adiabatic chiral phase transition seems to be disfavored by the pion-HBT data from CERN-SPS and BNL-RHIC.

- Quasi-stable black holes at the large hadron collider (2002)
- We address the production of black holes at LHC and their time evolution in space times with compactified space like extra dimensions. It is shown that black holes with life times of several hundred fm/c can be produced at LHC. The possibility of quasi-stable remnants is discussed.

- Kinetic equation for gluons in the background gauge of QCD (2002)
- We derive the quantum kinetic equation for a pure gluon plasma, applying the background field and closed-time-path method. The derivation is more general and transparent than earlier works. A term in the equation is found which, as in the classical case, corresponds to the color charge precession for partons moving in the gauge field. PACS numbers: 12.38.Mh, 25.75.-q, 24.85.+p, 11.15.Kc

- Suppression of high-P T jets as a signal for large extra dimensions and new estimates of lifetimes for meta stable micro black holes : from the early universe to future colliders (2002)
- We address the production of black holes at LHC in space times with compactified space-like large extra dimensions (LXD). Final state black hole production leads to suppression of high-PT jets, i.e. a sharp cut-o in (pp!jet+X). This signal is compared to the jet plus missing energy signature due to graviton production in the final state as proposed by the ATLAS collaboration. Time evolution and lifetimes of the newly created black holes are calculated based on the micro- canonical formalism. It is demonstrated that previous lifetime estimates of micro black holes have been dramatically underestimated. The creation of a large number of quasi-stable black holes is predicted with life times of hundred fm/c at LHC. Medium modifications of the black holes evaporation rate due to the quark gluon plasma in relativistic heavy ion collisions as well as provided by the cosmic fluid in the early universe are studied

- Black hole production in large extra dimensions at the Tevatron : possibility for a first glimpse on TeV scale gravity (2002)
- The production of black holes in large extra dimensions is studied for Tevatron energies. We find that black holes may have already been created in small abundance in pp collisions at ps = 1.8 TeV. For the next Tevatron run (ps = 2.0 TeV) large production rates for black holes are predicted.

- In-medium vector meson properties and low mass dilepton production from hot hadronic matter. (2002)
- The in-medium properties of the vector mesons are known to be modified significantly in hot and dense hadronic matter due to vacuum polarisation e ects from the baryon sector in the Walecka model. The vector meson mass drops significantly in the medium due to the e ects of the Dirac sea. In the variational approach adopted in the present paper, these e ects are taken into account through a realignment of the ground state with baryon condensates. Such a realignment of the ground state becomes equivalent to summing of the baryonic tadpole diagrams in the relativistic Hartree approximation (RHA). The approximation scheme adopted here goes beyond RHA to include quantum e ects from the scalar meson and is nonperturbative and self consistent. It includes multiloop e ects, thus corresponding to a di erent approximation as compared to the one loop approximation of including scalar field quantum corrections. In the present work, we study the properties of the vector mesons in the hot and dense matter as modified due to such quantum correction e ects from the baryon as well as scalar meson sectors. These medium modifications of the properties of the vector mesons are reflected, through the shifting and broadening of the respective peaks, in the low mass dilepton spectra. There is broadening of the peaks due to corrections from scalar meson quantum e ects as compared to the relativistic Hartree approximation. It is seen to be rather prominent for the ! meson in the invariant mass plot. PACS number: 21.65.+f,12.40.Yx