Tag: bioinformatics

Barcelona Supercomputing Center Develops New Bioinformatics Tool Against HIV

May 11, 2016 |

Viruses’ natural mutational agility has long been problematic for established therapies. Determining a therapeutic compound’s effectiveness against a mutated viral pathogen mostly entails empirical screening of the mutated virus with compounds to gauge effectiveness. This week researchers from the Barcelona Supercomputing Center and IrsiCaixa, the Catalan AIDS Research Institute, reported developing a bioinformatics method to Read more…

TGAC Installs largest SGI UV 300 Supercomputer for Life Sciences

May 11, 2016 |

Two weeks ago, The Genome Analysis Centre (TGAC) based in the U.K. turned on the first of two new SGI UV300 computers. Next week, or thereabouts, TGAC will bring a second identical system online. Combined with its existing SGI UV2000, TGAC will have the largest SGI system dedicated to life sciences in the world. The upgrade will allow TGAC to significantly shorten the time required to assemble wheat genomes, a core activity in TGAC efforts to enhance worldwide food security.

‘Biomolecular Motor-based’ Computer Promises Speed and Reduced Power

Mar 2, 2016 |

Combinatorial tasks are among the hardest for traditional computers. A good example is finding the optimum path through a large complicated network. Every possible path must be evaluated and as datasets grow the computing time grows exponentially making some tasks unfeasible. One practical example is verification of VLSI (very large scale integrated) semiconductor circuit design. Read more…

NVIDIA K80 GPU-System Speeds Up Bioinformatics Tool 12X

Jan 28, 2015 |

Not long ago, the high cost and relative slowness of DNA sequencing were the rate-limiting bottlenecks in biomedical research. Today, post-sequencing data analysis is the biggest challenge. The reason, of course, is the prodigious output from modern next-generation sequencing (NGS) instruments (e.g., Illumina and ThermoFisher/Life Technologies) overwhelming analysis pipelines. Efficiently sifting the data treasure trove Read more…

NSF Signs $1.4 Million Check to Advance Community Database

Jan 21, 2015 |

Thanks to an NSF award worth $1.4 million, bioinformatics researchers at Washington State University and Clemson University and elsewhere will soon have the kind of infrastructure capable of supporting 21st century big data genomics workloads. As part of the Tripal Gateway project, the multi-university team will work to enhance the scope and capacity of their existing Read more…

Pathogens Can’t Hide from Novel HPC Approach

Jan 21, 2015 |

In the realm of pathogenic threats, there are the usual suspects – anthrax, botulism, tuberculosis – but in reality there are a whole host of bacterial and viral pathogenic microbes that can be problematic to human and animal health. Protecting the public against these threats falls under the domain of biosecurity. While staying ahead of Read more…

Software Pinpoints Disease-Causing Genes

Oct 28, 2013 |

In what’s being heralded as a breakthrough in bioinformatics research, European researchers have developed a new software suite, called eXtasy, that automatically generates the most likely cause of a given genetic disorder. A team of scientists from iMinds, STADIUS, and Katholieke Universiteit Leuven (KU Leuven) built the new tool using advanced artificial intelligence techniques that Read more…

Coding Bioinformatics into the Cloud

Jul 24, 2013 |

A team comprised primarily of researchers from the Technical University of Munich published a paper this month on a system that will offer cloud functionality to a bioinformatics toolset that covers high performance applications.

HPC in the Cloud Research Roundup

Mar 29, 2013 |

<img src=”http://media2.hpcwire.com/hpccloud/cloud_graphic_150x.jpg” alt=”” width=”94″ height=”81″ />Our top HPC cloud research story this week lays out a lightweight approach to implementing virtual machine monitors. Other items explore an innovative parallel cloud storage system, HPC-to-cloud migration, anywhere-anytime cluster monitoring, and a framework for cloud storage.

The Week in HPC Research

Mar 21, 2013 |

<img src=”http://media2.hpcwire.com/hpcwire/Cloud_Storage_and_Bioinformatics_in_a_private_cloud_Fig._3_150x.png” alt=”” width=”95″ height=”95″ />The top research stories of the week include an evaluation of sparse matrix multiplication performance on Xeon Phi versus four other architectures; a survey of HPC energy efficiency; performance modeling of OpenMP, MPI and hybrid scientific applications using weak scaling; an exploration of anywhere, anytime cluster monitoring; and a framework for data-intensive cloud storage.