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Abstract. Grid benchmarking for improved computational resource selection can shed a light for improving the performance of computationally intensive applications. In this paper we report on a number of experiments with a biomedical parallel application to investigate the levels of performance offered by hardware resources distributed across a panEuropean computational Grid network. We provide a number of performance measurements based on the iteration time per processor and communication delay between processors, for a blood flow simulation benchmark based on the lattice Boltzmann method. We have found that the performance results obtained from real application benchmarking are much more useful for running our biomedical application on a highly distributed grid infrastructure than the regular resource information provided by standard Grid information services to resource brokers.

A fundamental issue related to the understanding of the molecular mechanisms, is the way in which common pathways act across different biological experiments related to complex diseases. Using network-based approaches, this work aims to provide a numeric characterization of pathways across different biological experiments, in the prospect to create unique footprints that may characterise a specific disease under study at a pathway network level. In this line we propose PathExNET, a web service that allows the creation of pathway-to-pathway expression networks that hold the over- and under expression information obtained from differential gene expression analyses. The unique numeric characterization of pathway expression status related to a specific biological experiment (or disease), as well as the creation of diverse combination of pathway networks generated by PathExNET, is expected to provide a concrete contribution towards the individualization of disease, and further lead to a more precise personalised medicine and management of treatment. PathExNET is available at: https://bioinformatics.cing.ac.cy/PathExNET and at https://pathexnet.cing-big.hpcf.cyi.ac.cy/