GASS: a data movement and access service for wide area computing systems
Proceedings of the sixth workshop on I/O in parallel and distributed systems
Future Generation Computer Systems - Special issue on metacomputing
Application-level scheduling on distributed heterogeneous networks
Supercomputing '96 Proceedings of the 1996 ACM/IEEE conference on Supercomputing
A Resource Management Architecture for Metacomputing Systems
IPPS/SPDP '98 Proceedings of the Workshop on Job Scheduling Strategies for Parallel Processing
Adaptive Computing on the Grid Using AppLeS
IEEE Transactions on Parallel and Distributed Systems
Heuristics for Scheduling Parameter Sweep Applications in Grid Environments
HCW '00 Proceedings of the 9th Heterogeneous Computing Workshop
Grid Information Services for Distributed Resource Sharing
HPDC '01 Proceedings of the 10th IEEE International Symposium on High Performance Distributed Computing
GIPSE: Streamlining the Management of Simulation on the Grid
ANSS '05 Proceedings of the 38th annual Symposium on Simulation
Practical Divisible Load Scheduling on Grid Platforms with APST-DV
IPDPS '05 Proceedings of the 19th IEEE International Parallel and Distributed Processing Symposium (IPDPS'05) - Papers - Volume 01
Biological sequence alignment on the computational grid using the GrADS framework
Future Generation Computer Systems - Special section: Complex problem-solving environments for grid computing
GridSAT: a system for solving satisfiability problems using a computational grid
Parallel Computing - Optimization on grids - Optimization for grids
VLAM-G: Interactive data driven workflow engine for Grid-enabled resources
Scientific Programming
Biological sequence alignment on the computational grid using the GrADS framework
Future Generation Computer Systems - Special section: Complex problem-solving environments for grid computing
Grid portal interface for interactive use and monitoring of high-throughput proteome annotation
LSGRID'04 Proceedings of the First international conference on Life Science Grid
Grid workflow software for a high-throughput proteome annotation pipeline
LSGRID'04 Proceedings of the First international conference on Life Science Grid
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The ongoing global effort of genome sequencing is making large scale comparative proteomic analysis an intriguing task. The Encyclopedia of Life (EOL; http://eol.sdsc.edu) project aims to provide current functional and structural annotations for all available proteomes, a computational challenge never seen before in biology. Using an integrative genome annotation pipeline (iGAP), we have produced 3D models and functional annotations for more than 100 proteomes thus far. This process is greatly facilitated by grid compute resources, and especially by the development of grid application execution environment. AppLeS (Application-Level Scheduling) Parameter Sweep Template (APST) has been adopted by the EOL project as a mediator to grid middleware. APST has made the annotation process much more efficient, highly automated and scalable. Currently we are building a domain-specific bioinformatics workflow management system (BWMS) on top of APST, which further streamlines grid deployment of life science applications. With these developments in mind, we discuss some common problems and expectations of grid computing for high throughput proteomics.