Posts Tagged ‘Times’
Convey Computer?s Implementation of PacBioToCA Algorithm Speeds DNA Sequence Assembly, Delivering Up to Fifteen Times Acceleration
Convey Computer’s Implementation of PacBioToCA Algorithm Speeds DNA Sequence Assembly, Delivering Up to Fifteen Times Acceleration
Richardson, TX (PRWEB) December 11, 2013
Convey Computer™ Corporation announced today the newest addition to Convey’s expanding bioinformatics suite, PacBioToCA, an application that facilitates the assembly of genomes sequenced with Pacific Biosciences® long-read technology. Optimized to take advantage of the highly parallel processing architecture of the Convey hybrid-core (HC) server, PacBioToCA delivers six to fifteen times acceleration.
Researchers running PacBioToCA on Convey HC systems for sequencing and assembly are seeing exceptional results. “The speed up is significant; but even more importantly, researchers are now able to test more parameters,” commented Dr. George Vacek, Director of Convey Computer’s Life Sciences business unit. “Achieving results in a matter of days instead of weeks allows them to refine their approach and get better answers.”
The PacBio® RS II DNA Sequencing System, from Pacific Biosciences (NASDAQ: PACB), helps scientists solve genetically complex problems. Their single-molecule sequencing instruments can generate industry-leading sequence read lengths that dramatically improve genome and transcriptome assembly.
Researchers are attracted to the exceptionally long PacBio reads because they can deliver higher quality assemblies. Prior to the development of algorithms optimized for PacBio read data (such as PacBioToCA), single-pass error rates had been perceived to limit their utility in de novo assembly.
Last year, Dr. Sergey Koren, Bioinformatics Scientist at the National Biodefense Analysis and Countermeasures Center, and his colleagues developed an assembly strategy that uses short sequences (either from PacBio circular consensus sequencing or short read technologies) typical of high-throughput sequencers to correct the errors in PacBio reads. This strategy was subsequently extended to use shorter single-molecule reads to correct the longest ones. These techniques deliver high-accuracy long reads, resulting in gold standard genome assemblies.
For larger genomes, the PacBioToCA algorithm can be time-consuming; therefore, Koren collaborated with Convey to optimize the PacBioToCA algorithm for Convey’s highly parallel HC systems. The optimized version of PacBioToCA runs much faster on the Convey HC servers because the alignment algorithm it uses is significantly faster on a Convey HC-2ex server than the best implementation on a standard server.
“It has been shown that long PacBio reads processed with PacBioToCA lead to such high-quality assemblies, researchers are saved the significant subsequent cost of manual finishing,” explained Kevin Corcoran, Senior Vice President of Market Development at Pacific Biosciences. “The combination of the PacBioToCA algorithm and a Convey HC system allows our customers to dramatically speed up research for projects in areas such as functional genomics, comparative genomics, and beyond.”
Convey’s groundbreaking hybrid-core computing architecture tightly integrates advanced computer architecture and compiler technology with commercial, off-the-shelf hardware—namely Intel® Xeon® processors and Xilinx® Field Programmable Gate Arrays (FPGAs). Particular algorithms are optimized and translated into code that’s loaded onto the FPGAs at runtime to accelerate applications that use these algorithms. The systems help customers dramatically increase performance over industry standard servers while reducing energy costs associated with high-performance computing.
“Adding PacBioToCA to the Convey Bioinformatics Suite reflects our ongoing commitment to the bioinformatics and life sciences community,” concluded Vacek. “We enjoy working with innovators to bring solutions to the industry that will help solve the challenges of the rapidly changing area of sequencing. We look forward to continuing to collaborate with Pacific Biosciences and others on optimization of bioinformatics workflows.”
Convey’s expanding bioinformatics suite is made up of a number of personalities including the Convey GraphConstructor™ for de novo short read assembly, Smith-Waterman for local sequence alignment, and Burrows-Wheeler Aligner for fast reference mapping.
About Convey Computer Corporation
Based in Richardson, Texas, Convey Computer breaks power, performance and programmability barriers with the world’s first hybrid-core computer—a system that marries the low cost and simple programming model of a commodity system with the performance of a customized hardware architecture. Using the Convey hybrid-core systems, customers worldwide in industries such as life sciences, research, big data, and the government/military enjoy order of magnitude performance increases while reducing acquisition and operating costs. http://www.conveycomputer.com
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Justin Bieber Tickets – Bieber fever five times fiercer than One Direction demand
Justin Bieber Tickets – Bieber fever five times fiercer than One Direction demand
(PRWEB UK) 6 July 2012
Justin Bieber was largely credited for helping One Direction gain popularity in the US, but data from Europe’s largest ticket marketplace, viagogo, suggests he won’t need their support in the UK when tickets for the Justin Bieber ‘Believe’ tour go on sale this Friday.
In the past four days alone viagogo has seen a 216 per cent increase in searches to see every teen’s dream “boyfriend” live on stage. ‘Just in’ one week, viagogo has seen higher demand for Bieber than the site has experienced for JLS and The Wanted combined.
Ticket demand has already surpassed that for One Direction’s tour next year, with Bieber proving five times more popular on the site than the “Gotta be You” boys.
Edward Parkinson, spokesperson for viagogo comments:
“One Direction will soon be returning home after charming America, but our data shows that Bieber is currently more popular than the whole band put together. They’ll have to pull out all the stops to compete with Bieber Fever which looks set to reach boiling point in the UK!”
For further information or images, please contact:
Cally Sheard / Caroline Stephenson
Eulogy!
Tel: 020 7927 9999
Email: viagogo(at)eulogy.co.uk
About viagogo
http://www.viagogo.co.uk
viagogo is a new kind of live event ticketing and marketing company that gives music, sports and theatre fans access to the best in live entertainment through a state-of-the-art online ticketing platform. viagogo’s ticket marketplace allows fans to buy and sell live event tickets in a secure environment bringing safety and transparency to the ticket resale market, which has traditionally been a murky business prone to fraud.
Through its partnerships with many of the world’s leading sports and music properties, including Chelsea FC, the Reading and Leeds Festivals, Roland-Garros, the Barclays ATP World Tour Finals and Andrew Lloyd Webber’s Really Useful Group, viagogo gives fans access to hard to get tickets that are often sold-out at the box office and unavailable through other ticketing channels.
viagogo is the market leader in its sector and one of the fastest growing internet companies in Europe, with local language websites in over 26 countries.
©Copyright 1997-
, Vocus PRW Holdings, LLC.
Vocus, PRWeb, and Publicity Wire are trademarks or registered trademarks of Vocus, Inc. or Vocus PRW Holdings, LLC.
Story of the World, Vol. 1: Ancient Times Chapter 5
History will never be the same. This spirited reading of the first in Susan Wise Bauer’s Story of the World history series brings to life the stories and records of the peoples of ancient times. Now more than ever, other countries and customs affect our everyday lives-and our children need to learn about the people who live all around the globe. Susan Wise Bauer has provided a captivating guide to the history of the ancient world. Written in an engaging, straightforward manner, The Story of the World weaves world history into a storybook format. This volume covers the major historical events from the beginning of civilization to the fall of the Roman Empire. This Story of the World audiobook is a collaboration between Jim Weiss, whose voice is liquid gold (CNN TV), and Susan Wise Bauer, whose writing has been described as timeless and intelligent (Publishers Weekly). It may be used along with the print book, as a supplement to a traditional history curriculum, or independently. Susan Wise Bauer is a novelist and educator. With her mother, Jessie Wise, she co-authored The Well-Trained Mind: A Guide to Classical Education at Home (Revised Edition, Norton, 2009), a book that has rapidly become an educational standard. Susan teaches at The College of William and Mary in Virginia. She was home-educated herself; she and her husband Peter teach their four children at home as well. Visit her homepage at www.susanwisebauer.com. Jim Weiss has been a storyteller for over 25 years …
Video Rating: 5 / 5