SOURCE: Mitrionics, Inc.

July 12, 2007 12:03 ET

Mitrionics and SGI Conduct Bioinformatics Workshop for FPGA-Accelerated Applications at RSSI 2007

Presented by Mitrionics' Co-Founder/CTO Stefan Möhl & SGI Principal Engineer Matthias Foquet-Lapar

LOS ANGELES, CA--(Marketwire - July 12, 2007) - Mitrionics™, Inc., developer of the Mitrion™ Software Acceleration Platform and the Mitrion Virtual Processor, today announced that its Co-Founder and Chief Technology Officer Stefan Möhl, along with SGI's Principal Engineer Matthias Fouquet-Lapar, will be conducting an all-day Bioinformatics Workshop featuring its Mitrion-accelerated NCBI BLAST application at the Reconfigurable Systems Summer Institute 2007 this July 17-20, 2007. The workshop will be held at the National Center for Supercomputing Applications (NCSA) Building on the Urbana-Champaign Campus of the University of Illinois. The agenda will cover basic to advanced concepts and instructions for developing FPGA-accelerated bioinformatics applications using the Mitrion Platform and the SGI® RASC™ RC100 blade system equipped with the latest powerful and energy-efficient FPGAs (Field Programmable Gate Arrays) from Xilinx. The recently released Mitrion-accelerated NCBI BLAST-n application, running on SGI's RASC System, increases application performance up to 60 times faster in sustained operation on one FPGA as compared to running on one core of a 2.8GHz Dual Core AMD Opteron Processor 220 SE.(1)

The Mitrionics & SGI Workshop on FPGA-Accelerated Bioinformatics Applications will be held:

Tuesday, July 17, 2007 from 8:30 a.m. to 5:00 p.m. in Room 2100.

To register for the workshop, go to the Web site:

Scientific advisory for the workshop will be given by Dr Nicolas Junge, Université Laval, Quebec, Canada

BLAST Optimization via the Mitrion Virtual Processor

The fine-grained, massively parallel Mitrion Virtual Processor (MVP) is the core of the Mitrion Platform and a vital component of the new accelerated Mitrion-BLAST. The MVP runs software written in the software-centric, Mitrion-C parallel programming language for FPGAs, and completely eliminates the need for the programmer to master hardware design. The Mitrion Virtual Processor has a unique architecture that lets it be adapted to each program it is running in order to maximize performance. This dramatically reduces the total development costs for FPGA-based software acceleration, and more importantly, enables the whole supercomputing industry to benefit from FPGA application acceleration.

SGI | Innovation for Results™

SGI (NASDAQ: SGIC) is a leader in high-performance computing. SGI delivers a complete range of high-performance server and storage solutions along with industry-leading professional services and support that enable its customers to overcome the challenges of complex data-intensive workflows and accelerate breakthrough discoveries, innovation and information transformation. SGI solutions help customers solve their computing challenges whether it's enhancing the quality of life through drug research, designing and manufacturing safer and more efficient cars and airplanes, studying global climate, providing technologies for homeland security and defense, or helping enterprises manage large data. With offices worldwide, the company is headquartered in Sunnyvale, Calif., and can be found on the Web at

About Mitrionics

Founded in 2001, Mitrionics, Inc. is the technology leader in the exciting new field of FPGA Supercomputing which provides higher processing power and lower energy consumption than clusters of computer systems. The company's Mitrion Virtual Processor and Mitrion Software Development Kit provide cost effective FPGA Supercomputing power to organizations for their most critical applications. The Mitrion Platform is unique from any other FPGA programming solution, because it eliminates the need for circuit design skills, thus making FPGA Supercomputing performance accessible to an entire new market of scientists and developers. Mitrionics has key industry relationships with Cray, Nallatech, and Silicon Graphics. For more information, visit the company Web site at, or call 310-558-9495, or email:

Mitrionics, Mitrion, Mitrion Platform, Mitrion Virtual Processor, and Mitrion Software Development Kit are trademarks of Mitrionics, Inc. All other trademarks are property of their respective owners.

(1) In internal tests, the following benchmarks have been run:

  a.  Searching the Unigene Human and Refseq Human databases
      (6,733,760 sequences; 4,089,004,795 total letters) using a small
      subset of the Human Genome U133 Plus 2.0 Array probe set from
      Affymetrix (3534 sequences; 88,350 total letters).

      SGI Altix/RC100 using 1 FPGA =  0h 09m 29s
      2.8GHz Dual Core AMD Opteron Processor 8220 SE using 1 core
      = 9h 30:m 7s

      Speedup: 60.1x

  b.  Searching the Unigene Human and Refseq Human databases
      (6,733,760 sequences; 4,089,004,795 total letters) using a subset
      of the Human Genome U133 Plus 2.0 Array probe set from Affymetrix
      (586,460 sequences; 14,661,500 total letters).

      SGI Altix/RC100 w/ 4 FPGAs =  7:09
      SGI Altix/RC100 w/ 8 FPGAs =  3:35
      SGI Altix XE w/ 64 cores   =  9:43

      Speedup (comparing 1 core to 1 FPGA): 21.7x

The tests were run using the following system configurations:

      SGI Altix/RC100: 1.6GHz Altix/RC100 - 8 x 1.6GHz/24MB L3 Dual Core
      Intel Itanium 2 Processor, 4 x RC100 (8 FPGAs), 64GB memory, SuSE

      3GHz Altix XE 210 - 32 x 3GHz/4MB L3 Dual Core Intel
      Xeon 5160 Processor, 16GB memory, SuSE Linux

      2.8GHz Opteron - 4 x 2.8GHz Dual Core AMD Opteron Processor
      8220 SE, 32GB memory, SuSE Linux

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