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CUDA-BLASTP is designed to accelerate NCBI BLAST for scanning protein sequence databases by taking advantage of the massively parallel CUDA architecture of NVIDIA Tesla GPUs. CUDA-BLASTP also has a utility to convert FASTA format database into files readable by CUDA-BLASTP.

Download and Installation

• Download CUDA-BLASTP
• CUDA-BLASTP Readme (Installation, User Guide)

Benchmark Data

CUDA-BLASTP running on a workstation with two Tesla C1060 GPUs is 10x faster than NCBI BLAST (2.2.22) running on an Intel i7-920 CPU. This cuts compute time from minutes on CPUs to seconds using GPUs.

Technical Papers

• A technical report about CUDA-BLASTP is coming soon from Nanyang Technological University, Singapore
• More publications on accelerating bio-informatics applications using GPUs

Discussion Forums

• GPU computing communities on GPUcomputing.net

The Tesla Bio Workbench applications can be deployed on GPU-based desktop personal supercomputers or in data center solutions. Built on the revolutionary massively parallel CUDA architecture, these solutions are designed to accelerate the pace of computational science.

RECOMMENDED HARDWARE CONFIGURATION

Desktop Workstation Configuration	Data Center Configuration
GPUs 4 Tesla C2070 GPUs CPU and Main Memory 2.33 GHz Quad-Core x86 CPU 24 GB or more	Not applicable (CUDA-BLASTP is not yet MPI enabled)

WORKSTATION SOLUTIONS TESLA PERSONAL SUPERCOMPUTER For personal supercomputing at your desk Learn more > Where to buy >		DATA CENTER SOLUTIONS TESLA GPU COMPUTING CLUSTERS For computing with large-scale installations Learn more > Where to buy >