Tag: genomics

Genomic Sequencing at Children’s Mercy: Saving Time to Save Lives

Jul 1, 2016 |

Genomic sequencing – that is, rapid sequencing – is instrumental to diagnosing and treating critically ill patients, and managing the high data volumes involved in genomics is essential to the process. Children’s Mercy Hospital in Kansas City, MO, (354 beds, not-for-profit, treating children from birth through the age of 21) operates what it says is the world’s first whole genome sequencing center in a pediatric setting, where physicians, clinical laboratory scientists, molecular geneticists, bioinformaticians and software engineers work to sequence and analyze rare inherited diseases.

TGAC Unleashes DRAGEN to Accelerate Genomics Workflows

Oct 28, 2015 |

Accelerating genomics analysis remains one of the toughest challenges in life science research. All manner of optimizations are in use – disk streaming, optimized parallel files systems, algorithm tweaks, faster processors, and hardware accelerators, to name a few – all with varying results. Today, TGAC reported implementation of the first processor specifically designed to accelerate Read more…

Accelerate Drug Discovery with Machine Learning on Big Medical Data

Sep 24, 2015 |

Pharmaceutical companies spend billions testing prospective drugs by conducting “wet lab” experiments that can take years to complete. But what if the same results could be obtained in a matter of minutes by running computer model simulations instead? A Silicon Valley startup says it has created a novel machine learning algorithm that does just that. Read more…

Cycle Computing Orchestrates Cancer Research on Google Cloud

Sep 10, 2015 |

This week HPC cloud software specialist Cycle Computing announced that its full suite of products can now be used to spin up clusters on Google’s cloud platform. As testament to the new partnership, Cycle leveraged Google Compute Engine (GCE) to run a 50,000-core cancer gene analysis workload for the Broad Institute. As Cycle Computing explains, Broad’s Cancer Group approached them Read more…

The Era of Personalized Medicine: An Interview with Peter Coveney

Sep 3, 2015 |

What opportunities and challenges come with personalized medicine? What amount of computing is necessary to get meaningful results? Are we able to handle substantial quantities of patient data and to use them to perform predictive, mechanistic modelling and simulation? Based on this, will we be able to deliver therapies and to enhance clinical decision making. Read more…

Texas Supercomputers Contribute to Cancer Hotspot Discovery

Jun 22, 2015 |

Powerful supercomputers around the country continue to push advances in critical areas, such as cancer research. One of the latest such success stories comes out of The University of Texas at Austin, where Texas Advanced Computing Center machines revealed a connection between cross-shaped (cruciform) DNA segments and human cancers. By shedding light on the pathways involved in Read more…

First HPC Service at University of Sydney Tackles Big Science Problems

Jun 15, 2015 |

A Dell cluster called Artemis is on track to solve problems important to Australia and the world. Commissioned by the University of Sydney, the new cluster is the university’s first high-performance computer (HPC) service. Like research institutions everywhere, the University of Sydney is seeking to accommodate increasingly data-centric workflows. This new HPC service, established via a partnership Read more…

Sizing Up Earth’s Biosphere Supercomputer

Jun 12, 2015 |

If you’ve ever wondered how much DNA data there is on earth, you’re not alone. But a trio of UK researchers did more than wonder. They set to calculating the total information content in the biosphere and published their results and methodology in a recent issue of PLOS Biology. In this first ever accounting of Read more…

PHE Uses DDN Technology to Speed Sample Processing 16x

Jun 10, 2015 |

Fast sequencing of bacterial and viral strains is critical in identifying public health threats. Data analysis, not sequencing itself, is the challenge with I/O bottlenecks being most problematic. The Public Health England, leveraging DataDirect technology, recently accelerated its sequence process 16x and can now sequence 92 samples in the time previously needed for 12. PHE 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…