Large-Scale Co-Phylogenetic Analysis on the Grid - Cloud, Grid and High Performance Computing: Emerging Applications - page 237

REFERENCES resources from the user. Note that in particular for

non-expert users, easy accessibility and usability
of HPC resources represents a major criterion for
the selection of software and systems. We thus
believe that the proposed architecture will greatly
facilitate access to HPC resources for real-world
biological studies on host-parasite evolution.
Nonetheless, the requirement to obtain access
and accreditation to use Grid resources (valid
X.509 proxy certificate) will possibly hinder a
large amount of potential users to exploit these
new possibilities offered by the Grid. Based on
previous experience with the development of
the freely accessible RAxML Web servers for
phylogenetic reconstruction (Stamatakis et al.,
2008, over 8,000 job submissions in the first 8
months of operation) that are however scheduling
jobs to dedicated clusters instead of the Grid, we
believe that a freely accessible Web server for this
Grid-enabled system for co-phylogenetic analyses
can contribute to the generation of biological in-
sights, by further simplifying the access to HPC
resources. Thus, future work will concentrate on
the development of such a Web server, as well as
the integration with the aforementioned RAxML
servers such as to provide a comprehensive phy-
logenetic and co-phylogenetic analysis pipeline.

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ACKNOWLEDGMENT

This work was funded in part by the EU project
EMBRACE Grid which is funded by the European
Commission within its FP6 Program, under the
thematic area “Life sciences, genomics and bio-
technology for health”, contract number LUNG-
CT-2004-512092. The Exelixis lab (AS) is funded
under the auspices of the Emmy-Noether program
by the German Science Foundation (DFG).

Hansen, H., Bachmann, L., & Bakke, T. A. (2003).
Mitochondrial DNA variation of Gyrodactylus
spp. Monogenea, Gyrodactylidae populations
infecting Atlantic salmon, grayling, and rain-
bow trout in Norway and Sweden. International
Journal for Parasitology , 33 (13), 1471-1478.
doi:10.1016/S0020-7519(03)00200-5