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2008
IEEE

Evolving GeneChip correlation predictors on parallel graphics hardware

8 years 10 months ago
Evolving GeneChip correlation predictors on parallel graphics hardware
—A GPU is used to datamine five million correlations between probes within Affymetrix HG-U133A probesets across 6685 human tissue samples from NCBI’s GEO database. These concordances are used as machine learning training data for genetic programming running on a Linux PC with a RapidMind OpenGL GLSL backend. GPGPU is used to identify technological factors influencing High Density Oligonuclotide Arrays (HDONA) performance. GP suggests mismatch (PM/MM) and Adenosine/Guanine ratio influence microarray quality. Initial results hint that Watson-Crick probe self hybridisation or folding is not important. Under GPGPGPU an nVidia GeForce 8800 GTX interprets 300 million GP primitives/second (300 MGPops, approx 8 GFLOPS).
William B. Langdon
Added 29 May 2010
Updated 29 May 2010
Type Conference
Year 2008
Where CEC
Authors William B. Langdon
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