Published:
BioTeam Names SGI, Mitrionics and Accelerated BLAST in Top Ten BioIT Trends for 2007
Mitrionics and Mitrion-Accelerated BLAST Named in #5 "Reconfigurable Accelerator Boards (FPGAs)" Along With SGI

SGI (NASDAQ: SGIC),
manufacturer of FPGA (Field Programmable Gate Array)-based SGI® Altix®
family servers with SGI® RASC(TM) RC100 computation blades, and
Mitrionics(TM), Inc., developer of the Mitrion(TM) Virtual Processor and
software-centric Mitrion-C programming language for FPGA Supercomputing
acceleration, were named as one of the Top Ten BioIT Trends for 2007 that
was published in the industry publication BioIT World. Compiled by the
BioTeam, a consulting collective dedicated to delivering vendor-agnostic
informatics solutions to the life sciences industry, Mitrionics and its
close FPGA Supercomputing provider SGI were both named in the #5 Top BioIT
Trend - "Reconfigurable Accelerator Boards (FPGAs)."
"The first thing I should mention is that the list is totally unordered, so
being number 5 is not necessarily different than being 3 or being 8," said
Christopher Dwan, BioTeam Principal Investigator, who recommended the
addition of FPGAs to the BioIT Trends list. "Reconfigurable computing
devices occupy this interesting ground between absolute standard CPUs and
completely custom computing hardware. In a number of cases, they have been
shown to deliver substantial improvements in performance, price/performance
and power consumption."
Additionally, the collaborative efforts of SGI and Mitrionics directly
address the #1 Top Ten BioIT Trend for 2007 -- which is "Power and Cooling
Costs." SGI and Mitrionics are the leaders in the expanding market of FPGA
Supercomputing -- where applications are modified to be accelerated (10x to
100x) on computer systems utilizing FPGAs. Mitrionics has also accelerated
the NCBI BLAST bioinformatics application and is delivering that as a
turnkey solution worldwide with SGI.
# 5 Top BioIT Trend for 2007 as described in the Dec/Jan 2007 Issue of
BioIT World - Vol. 5, no. 10.
"Reconfigurable Accelerator Boards (FPGAs) - FPGA technology has been the
'next big thing' in bioinformatics for awhile, and 2007 will be no
exception. SGI is including an FPGA offering in their new product line,
and companies like Mitrionics are providing a development environment,
which will support expanded use. As the computational load required for
genomics becomes more stable, specific common tools like BLAST will be
moved to dedicated, special purpose hardware."
"For about the past 6 or 7 years I've been going to the Supercomputing
conference; I've seen reconfigurable devices like the FPGAs and they've
been lacking two critical parts. One: they are more difficult to use than
general processors because you have to put in a lot more effort to build
out this custom thing to get essentially the same result, except that same
result is going to be faster. FPGAs have been lacking either an easy way
for its users to do that, or an established person in the middle who builds
out the specific tool for the specific application area, at least in the
life sciences. You want something that makes your science easier to do, not
harder," said Dwan.
"This year at Supercomputing '06, I saw several companies stepping into
that gap, specifically Mitrionics, coming out with their compiler libraries
and all sorts of expertise in various scientific domains," continued Dwan.
"It strikes me as exactly what is needed in order to turn FPGAs from a
potentially useful technology into something where, in a year, we're going
to be saying 'Wow! Why didn't anybody do that sooner?'
"And the second factor that I saw is the partnership with major hardware
vendors, and by hardware vendors I mean the people who, at the end of the
day, sell hardware to customers," said Dwan. "Instead of vendors viewing
this technology as a competition to their core chip business as in the
past, SGI and some others are seeing it as a value-add that makes the
product offering more powerful. People are going to buy a particular brand
because of the support, because of the reliability, and also because the
product is tightly integrated and partnered with these reconfigurable
accelerator boards. I've been saying, 'Wow, FPGAs are going to be the next
big thing' forever. I think it's this year. It seems to me that Mitrionics
and SGI finally see the two pieces that were missing in the stack. They
finally got it. I think we're going to start seeing some really interesting
products."
#1 Top BioIT Trend for 2007 as described in the Dec/Jan 2007 Issue of BioIT
World - Vol. 5, no. 10.
"Power and Cooling Costs (both in Dollars and CO2) - A typical 1U server
costs $1 to $2 per day to both heat (provide computing) and cool. On the
surface this may not seem like much. However, annually this adds up to a
typical 42U rack consuming $30,000 in electricity and the generation of CO2
equivalent to having burned 4,000 gallons of gasoline. These factors
(among others) are driving hardware manufacturers to increase the number of
FLOPS per Watt. The introduction of the two- and four-core processors
dramatically increase the number of FLOPS per Watt. Look for the number of
cores per processor to hit double digits."
"I think in terms of genomes analyzed per ton of coal," said Dwan, who was
also instrumental in selecting "Power and Cooling Costs" for the Top Ten
trends article. "If coal is used to generate electricity and the end goal
is to analyze genomes, there's some exchange we're making between digging
up dirty stuff out of the ground and getting useful scientific knowledge. I
wrote a column in Bio IT World exclusively dedicated to power in the data
center and what it costs. The number that I came up with was approximately
$1 per day per server. That's not unreasonable for a human being sitting in
their home with a computer: $365 a year to have this device on. But when
you stack them up into, say, a 200-node cluster, that's $200 a day.
Suddenly I've got about a full-time employee's worth of electricity being
burned. And that's a recurring cost that's only going to get more expensive
as electricity gets more expensive. Then, there are environmental concerns.
It's going to be absolutely huge to say 'Okay, can we be just a bit more
efficient?' We have a choice between having one special-purpose device --
or we could do it with general-purpose processors, but it will take 20
times as many of them. If you're going to be doing scientific research,
such as genomic data matching for typically two years, you can see the
cost-savings immediately."
"We believe our accelerated turnkey bioinformatics solutions, currently
offered in conjunction with our close partner SGI, are going to
dramatically increase the market adoption of real-world, FPGA-accelerated
systems and applications in 2007. Customers from around the globe have
shown strong interest in our Mitrion-accelerated BLAST, and we're following
that up with additional BLAST versions, and other applications for
bioinformatics," stated Anders Dellson, CEO of Mitrionics, Inc.
"Mitrionics is also very involved in developing or co-developing
FPGA-accelerated applications for a variety of industry segments as well as
government and scientific projects. The success SGI and Mitrionics are
having in FPGA Supercomputing really demonstrates what can be accomplished
when you have two companies in the right places, at the right time, working
together. After years of interest and hype about the ability of FPGAs to
accelerate application performance, the next few months and quarters are
going to transform what was previously just potential into a practical
reality that will redefine this technology and market segment."
"An FPGA draws one-quarter to one-third the power of a CPU, and yet can
generate results more rapidly," said Michael Brown, sciences segment
manager at SGI. "The combination of higher performance with lower power
consumption will figure heavily in purchasing decisions in the sciences and
other industries. Scientists are already using SGI RASC capabilities to
effectively obtain results from the mountains of genomic data being
generated by next generation genome sequencers."
About Mitrion-Accelerated BLAST
Mitrion-accelerated BLAST applications are designed to run on the Mitrion
Virtual Processor operating in FPGA (Field Programmable Gate Array)-based
computer systems including the SGI® RASC RC100 computation blade in SGI
Altix family servers, built with dual Xilinx Virtex-4 FPGAs. The turnkey
BLAST application provides instant FPGA Supercomputing performance
acceleration without requiring any development costs, time, or risks by the
customer. The Mitrion-accelerated BLAST marks a major industry milestone
by achieving significant performance increases over traditional processors
and it is the first commercially available FPGA-accelerated application to
run on systems from a major vendor.
About BLAST
BLAST (Basic Local Alignment Search Tool) is the primary tool for sequence
comparisons in Bioinformatics and contains several subprograms for
different computational problems. These subprograms all use a heuristic
search algorithm designed to speed up computations while retaining
sensitivity. The amount of sequence data in public databases has been
growing faster than CPU speed, making speed a fundamental problem in
bioinformatics data mining.
About the Mitrion Platform and Mitrion Virtual Processor
The fine-grained, massively parallel Mitrion Virtual Processor is the core
of the Mitrion Platform. It runs software written in the Mitrion-C
programming language in 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. Together with the Mitrion Software
Development Kit, it offers a unique solution for developing supercomputing
applications for FPGAs on a true software level. 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.
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
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 SGI. For more information, visit
the company Web site at www.mitrionics.com or call 310-558-9495, or email:
info@mitrionics.com.
About BioTeam
BioTeam is a consulting collective dedicated to delivering vendor-agnostic
informatics solutions to the life sciences industry. They can be found on
the Web at http://web.bioteam.net/metadot/index.pl
SGI -- Innovation for Results(TM)
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 www.sgi.com.
© 2007 SGI. All rights reserved. SGI, Altix, the SGI cube and the SGI
logo are registered trademarks, and NUMAflex, NUMAlink and RASC are
trademarks of SGI in the United States and/or other countries worldwide.
Mitrionics, Mitrion, Mitrion Platform, Mitrion Virtual Processor, and
Mitrion Software Development Kit are trademarks of Mitrionics, Inc. Linux
is a registered trademark of Linus Torvalds in several countries. Intel,
Itanium, and Xeon are trademarks or registered trademarks of Intel
Corporation or its subsidiaries in the United States and other countries.
All other trademarks mentioned herein are the property of their respective
owners.
This news release contains forward-looking statements regarding SGI
technologies and third-party technologies that are subject to risks and
uncertainties. These risks and uncertainties could cause actual results to
differ materially from those described in such statements. The reader is
cautioned not to rely unduly on these forward-looking statements, which are
not a guarantee of future or current performance. Such risks and
uncertainties include long-term program commitments, the performance of
third parties, the sustained performance of current and future products,
financing risks, the ability to integrate and support a complex technology
solution involving multiple providers and users, and other risks detailed
from time to time in the company's most recent SEC reports, including its
reports on Form 10-K and Form 10-Q.
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