Computational Research in the Battelle Center for Mathmatical medicine

Statistical Genetics Research Develop statistical methodologies Localize and characterize human disease genes –Autism, CLP, AITD, Schizophrenia Our approach involves millions of likelihood calculations at each genomic position Each multi-parameter likelihood could be slow

Polynomial approach Represent likelihoods as algebraic polynomials Built once/family/position Evaluated millions of times Challenges –High memory demand –Time consuming

Computing Infrastructure 65 node Cluster w/ 4TB storage –Head Node (AMD Opteron 2xDuo Core 2.4 GHz, 16GB RAM) –16 Compute Nodes (AMD Opteron 2xDuo 2.4GHz, 8GB RAM) –16 Compute Nodes (AMD Opteron 2xDuo 2.4 GHz, 16GB RAM) –32 Compute Nodes (AMD Opteron 2xDuo 2.8 GHz, 16GB RAM)

Database Servers Master server –2 x 3.0 GHz Intel Xeon Quad Core –16GB RAM –300GB RAID 1 for OS –900GB RAID 5 for data Slave server –2 x 2.0 GHz Intel Xeon Dual Core –16GB RAM –300GB RAID 1 for OS –900GB RAID 5 for data

Data Management MySQL master/slave setup Client MasterSlave replicate input Webserver output

Data Management Manage/store genetic data –Million SNPs per individual Data upload to OSC –~ 1TB a week –~ 30 TB total Current live disk is full Move data to tape library –View content (just file and folder names) – start retrieve jobs on our own

Desire Summary Access to nodes with sufficient memory Access to massive storage Great collaborations