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Job of the Week: HPC System Administrators at D.E. Shaw Research in New York

D.E. Shaw Research in New York is seeking HPC System Administrators in our Job of the Week. “Our research effort is aimed at achieving major scientific advances in the field of biochemistry and fundamentally transforming the process of drug discovery. Exceptional sysadmins sought to manage systems, storage, and network infrastructure for a New York–based interdisciplinary research group. Positions are available at our New York City offices, and at our data centers in Durham, NC and Endicott, NY.”

Slidecast: How Optalysys Accelerates FFTs with Optical Processing

In this RichReport slidecast, Dr. Nick New from Optalysys describes how the company’s optical processing technology delivers accelerated performance for FFTs and Bioinformatics. “Our prototype is on track to achieve game-changing improvements to process times over current methods whilst providing high levels of accuracy that are associated with the best software processes.”

Video: The State of Bioinformatics in HPC

“In the last few years DNA sequencing technologies have become extremely cheap enabling us to quickly generate terabytes of data for a few thousand dollars. Analysis of this data has become the new bottleneck. Novel compute-intensive streaming approaches that leverage this data without the time-costly step of genome assembly and how UWA’s Edwards group leveraged these approaches to find new breeding targets in crop species are presented.”

HudsonAlpha to expand Encyclopedia of DNA Elements Project

Today the HudsonAlpha Institute for Biotechnology, a nonprofit genomics and genetics research institute, has been awarded a four-year, $6.7 million grant from the National Institutes of Health (NIH) for the next phase of the Encyclopedia of DNA Elements (ENCODE) Project, a fundamental genomics resource used by many scientists to study human health and disease. Funded […]

Building the CLIMB Project – World’s Largest Single System for Microbial Bioinformatics

A new private Cloud HPC system will soon benefit bioinformatics researchers in their work on bacterial pathogens. The Cloud Infrastructure for Microbial Bioinformatics (CLIMB) project, a collaboration between the University of Birmingham, the University of Warwick, Cardiff University, and Swansea University, will create a free-to-use, world leading cyber infrastructure specifically designed for microbial bioinformatics research.

Tuning Bioinformatics Codes with Allinea Performance Reports

In this video from ISC 2015, Mark O’Connor from Allinea demonstrates how the company’s Performance Reports tool enables coders to speed up the Discovar bioinformatics code. “Allinea Performance Reports are the most effective way to characterize and understand the performance of HPC application runs. One single-page HTML report elegantly answers a range of vital questions for any HPC installation.”

Video: HPC Trends in the Trenches from Bio-IT World

In this video, Chris Dagdigian from Bioteam delivers his annual assessment of the best, the worthwhile, and the most overhyped information technologies for life sciences at the 2015 Bio-IT World Conference & Expo in Boston.

Video: A Bioinformatics Pipeline for Analyzing Patient Tumours

In this video from WestGrid in Canada, Dr. Yussanne Ma from the Michael Smith Genome Sciences Centre describes how high performance computing supports her research group’s work, highlighting a recent project where a bioinformatics pipeline was built for the personalized onco-genomics project (POG) at the BC Cancer Agency.

Ghent University Speeds Genome Analysis with TimeLogic

Using FPGA-based accelerators, TimeLogic’s DeCypher systems greatly increase the speed of sequence comparison.