University of Stuttgart

About: University of Stuttgart is a education organization based out in Stuttgart, Germany. It is known for research contribution in the topics: Laser & Finite element method. The organization has 27715 authors who have published 56370 publications receiving 1363382 citations. The organization is also known as: Universität Stuttgart.

Next-generation sequencing diagnostics of bacteremia in septic patients.

Abstract: Bloodstream infections remain one of the major challenges in intensive care units, leading to sepsis or even septic shock in many cases. Due to the lack of timely diagnostic approaches with sufficient sensitivity, mortality rates of sepsis are still unacceptably high. However a prompt diagnosis of the causative microorganism is critical to significantly improve outcome of bloodstream infections. Although various targeted molecular tests for blood samples are available, time-consuming blood culture-based approaches still represent the standard of care for the identification of bacteria. Here we describe the establishment of a complete diagnostic workflow for the identification of infectious microorganisms from seven septic patients based on unbiased sequence analyses of free circulating DNA from plasma by next-generation sequencing. We found significant levels of DNA fragments derived from pathogenic bacteria in samples from septic patients. Quantitative evaluation of normalized read counts and introduction of a sepsis indicating quantifier (SIQ) score allowed for an unambiguous identification of Gram-positive as well as Gram-negative bacteria that exactly matched with blood cultures from corresponding patient samples. In addition, we also identified species from samples where blood cultures were negative. Reads of non-human origin also comprised fragments derived from antimicrobial resistance genes, showing that, in principle, prediction of specific types of resistance might be possible. The complete workflow from sample preparation to species identification report could be accomplished in roughly 30 h, thus making this approach a promising diagnostic platform for critically ill patients suffering from bloodstream infections.

Logic-geometric programming: an optimization-based approach to combined task and motion planning

Abstract: We consider problems of sequential robot manipulation (aka. combined task and motion planning) where the objective is primarily given in terms of a cost function over the final geometric state, rather than a symbolic goal description. In this case we should leverage optimization methods to inform search over potential action sequences. We propose to formulate the problem holistically as a 1st- order logic extension of a mathematical program: a non-linear constrained program over the full world trajectory where the symbolic state-action sequence defines the (in-)equality constraints. We tackle the challenge of solving such programs by proposing three levels of approximation: The coarsest level introduces the concept of the effective end state kinematics, parametrically describing all possible end state configurations conditional to a given symbolic action sequence. Optimization on this level is fast and can inform symbolic search. The other two levels optimize over interaction keyframes and eventually over the full world trajectory across interactions. We demonstrate the approach on a problem of maximizing the height of a physically stable construction from an assortment of boards, cylinders and blocks.

Explicitly correlated RMP2 for high-spin open-shell reference states

Abstract: We present an explicitly correlated version of the high-spin open-shell RMP2 method. The theory is derived in a unitarily invariant form, which is suitable for the insertion of local approximations. It is demonstrated that the rapid basis set convergence of closed-shell MP2-F12 is also achieved in RMP2-F12, and similar Ansatze and approximations can be employed. All integrals are computed using efficient density fitting approximations, and many-electron integrals are avoided using resolution of the identity approximations. The performance of the method is demonstrated by benchmark calculations on a large set of ionization potentials, electron affinities and atomization energies. Using triple-zeta basis sets RMP2-F12 yields results that are closer to the basis set limit than standard RMP2 with augmented quintuple-zeta basis sets for all properties. Different variants of perturbative corrections for the open-shell Hartree-Fock treatment are described and tested.