Application of high-throughput computing in bioinformatics.
We describe the challenges faced when developing a Linux/PC-based cluster to apply bioinformatics algorithms to the rapidly increasing raw genomics data available. The calculations, which take around two months to complete, result in a powerful resource that can be used for data mining--most obviously for the human genome. Our current infrastructure consists of a 1314 node cluster with 1734 processors supporting both production and research. This paper highlights the problems in achieving high data throughput with such systems and shows that raw computer power is only one component of a complex problem.
Swindells
Mark
M
Inpharmatica Ltd, 60 Charlotte Street, London W1T 2NU, UK.
Rae
Mark
M
Pearce
Martyn
M
Moodie
Stuart
S
Miller
Rob
R
Leach
Pat
P
D019295:Computational Biology / Q000379:methods / Q000639:trends; D003198:Computer Simulation; D003199:Computer Systems; D003205:Computing Methodologies; D003628:Database Management Systems; D004282:Documentation / Q000379:methods*; D016247:Information Storage and Retrieval / Q000379:methods*; D020407:Internet; D008122:Local Area Networks; D011487:Protein Conformation; D011506:Proteins / Q000737:chemistry*; D020539:Sequence Analysis, Protein / Q000379:methods*
D011506:Proteins