GPU Computing Gems Emerald Edition

Copyright © 2011 NVIDIA Corporation and Wen-mei W. Hwu. All rights reserved.

Introduction

11 Accurate Scanning of Sequence Databases with the Smith-Waterman Algorithm 155

12 Massive Parallel Computing to Accelerate Genome-Matching 173

13 GPU-Supercomputer Acceleration of Pattern Matching 185

14 GPU Accelerated RNA Folding Algorithm 199

15 Temporal Data Mining for Neuroscience 211

State of GPU Computing in Life Sciences

Life sciences have emerged as a primary application area for the use of GPU computing. This is mainly caused by the large amount of publicly available sequence, expression, and structure data. The amount of available data will grow even further in the near future owing to advances in high-throughput technologies leading to a data ...