Supporting Scientific Biological Applications with Seamless Database Access in Interoperable e-Science Infrastructures

@inproceedings{Holl2010SupportingSB,
  title={Supporting Scientific Biological Applications with Seamless Database Access in Interoperable e-Science Infrastructures},
  author={Sonja Holl and Morris Riedel and Bastian Demuth and Mathilde Romberg and Achim Streit},
  booktitle={BIOINFORMATICS},
  year={2010}
}
In the last decade, computational biological applications have become very well integrated into e-Science infrastructures. These distributed resources, containing computing and data sources, provide a reasonable environment for computing and data demanding applications. The access to e-Science infrastructures is mostly enstablished via Grids, where Grid clients support scientists using different types of resources. This paper extends an instance of the infrastructure interoperability reference… 

Figures from this paper

References

SHOWING 1-10 OF 20 REFERENCES
Improving e-Science with Interoperability of the e-Infrastructures EGEE and DEISA
TLDR
It is argued that future interoperability of such large e- science infrastructures is required to improve e-Science in general and to increase the real scientific impact of world-wide Grids in particular.
Enabling Grids for e-Science: The EGEE Project
TLDR
An overview of EGEE, its infrastructure, middleware, applications and support structures is provided to provide a first source of information for similar efforts elsewhere and based on EGEE's experiences a sustainable model for Grid operations will be discussed.
DEISA—Distributed European Infrastructure for Supercomputing Applications
The paper presents an overview of the current research and achievements of the DEISA project, with a focus on the general concept of the infrastructure, the operational model, application projects
Life science application support in an interoperable e-science environment
TLDR
The approach focuses on a comfortable user interface for the creation of such program sequences, validated in UNICORE-driven HPC-based Grids, and applies in order to provide support for the usage of the AMBER package within Grid workflows.
Workflows for e-Science, Scientific Workflows for Grids
This is a timely book presenting an overview of the current state-of-the-art within established projects, presenting many different aspects of workflow from users to tool builders. It provides an
Research advances by using interoperable e-science infrastructures
TLDR
Insight is provided into the proposed infrastructure reference model that represents a trimmed down version of ogsa in terms of functionality and complexity, while on the other hand being more specific and thus easier to implement.
Wildfire: distributed, Grid-enabled workflow construction and execution
TLDR
Wildfire simplifies the tasks of constructing and executing bioinformatics workflows by borrowing user interface features from Jemboss and adding a drag-and-drop interface allowing the user to compose EMBOSS (and other) programs into workflows.
The New Biology and the Grid
TLDR
This chapter is written from the perspective of bioinformatics specialists who seek to fully capitalize on the promise of the Grid and who are working with computer scientists and technologists developing biological applications for the Grid.
Pegasys: software for executing and integrating analyses of biological sequences
TLDR
A novel data structure is introduced for creating workflows of sequence analyses and a unified data model to store its results in the Pegasys system, which enables biologists and bioinformaticians to create and manage sequence analysis workflows.
...
...