相关论文: StochKit-FF: Efficient Systems Biology on Multicor…
We consider the problem of verifying stochastic models of biochemical networks against behavioral properties expressed in temporal logic terms. Exact probabilistic verification approaches such as, for example, CSL/PCTL model checking, are…
Modern computer designs support composite prefetching, where multiple individual prefetcher components are used to target different memory access patterns. However, multiple prefetchers competing for resources can drastically hurt…
The increasing availability of large clinical datasets collected from patients can enable new avenues for computational characterization of complex diseases using different analytic algorithms. One of the promising new methods for…
The complex regulatory dynamics of a biological network can be succinctly captured using discrete logic models. Given even sparse time-course data from the system of interest, previous work has shown that global optimization schemes are…
We propose and study a planning problem we call Sequential Fault-Intolerant Process Planning (SFIPP). SFIPP captures a reward structure common in many sequential multi-stage decision problems where the planning is deemed successful only if…
Many complex systems occurring in the natural or social sciences or economics are frequently described on a microscopic level, e.g., by lattice- or agent-based models. To analyze the states of such systems and their bifurcation structure on…
Biological living systems in general exhibit complex and diverse dynamics. The latter, in particular, is essential, since diversification increases the odds of survival of an organism while reducing the risk of extinction of the population.…
We tackle limitations of ordinary differential equation-driven Susceptible-Infections-Removed (SIR) models and their extensions that have recently be employed for epidemic nowcasting and forecasting. In particular, we deal with challenges…
Computing on encrypted data is a promising approach to reduce data security and privacy risks, with homomorphic encryption serving as a facilitator in achieving this goal. In this work, we accelerate homomorphic operations using the…
The amount of data generated by numerical simulations in various scientific domains such as molecular dynamics, climate modeling, biology, or astrophysics, led to a fundamental redesign of application workflows. The throughput and the…
FastFlow is a structured parallel programming framework targeting shared memory multicores. Its layered design and the optimized implementation of the communication mechanisms used to implement the FastFlow streaming networks provided to…
Simulation of biomolecular networks is now indispensable for studying biological systems, from small reaction networks to large ensembles of cells. Here we present a novel approach for stochastic simulation of networks embedded in the…
Popular video training methods mainly operate on a fixed number of tokens sampled from a predetermined spatiotemporal grid, resulting in sub-optimal accuracy-computation trade-offs due to inherent video redundancy. They also lack…
Stencil computations consume a major part of runtime in many scientific simulation codes. As prototypes for this class of algorithms we consider the iterative Jacobi and Gauss-Seidel smoothers and aim at highly efficient parallel…
The work reported here aims to address the effects of time-dependent parameters and stochasticity on decision-making in biological systems. We achieve this by extending previous studies that resorted to simple normal forms. Yet, we focus…
In generating large quantities of DNA data, high-throughput sequencing technologies require advanced bioinformatics infrastructures for efficient data analysis. k-mer counting, the process of quantifying the frequency of fixed-length k DNA…
Interest in many-core architectures applied to real time selections is growing in High Energy Physics (HEP) experiments. In this paper we describe performance measurements of many-core devices when applied to a typical HEP online task: the…
Flow-based microfluidic biochips have attracted much atten- tion in the EDA community due to their miniaturized size and execution efficiency. Previous research, however, still follows the traditional computing model with a dedicated…
Parallel processing is a principle which enables simultaneous implementation of anesthesia induction and operating room (OR) turnover with the aim of improving OR utilization. In this article, we study the problem of scheduling surgeries…
The large-scale training of multi-modal models on data scraped from the web has shown outstanding utility in infusing these models with the required world knowledge to perform effectively on multiple downstream tasks. However, one downside…