Tag: genomics

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…

Study Points to Big Bang of Bird Evolution

Dec 15, 2014 |

An international consortium comprised of hundreds of scientists from around the world has successfully decoded the avian genome. The multi-year project harnessed the power of nine supercomputers and 400 years of computing time to sequence, assemble and compare the full genomes of 48 bird species, shedding light on a wide range of avian evolutionary diversity. The Read more…

Complex Wheat Genome Nearly Cracked

Dec 4, 2014 |

One of the highlights of SC14 was a focus on how HPC is expanding out of its roots and cropping up in more and more places. One of the more interesting use cases to take center stage at this year’s event in New Orleans was the significance of HPC to understanding and decoding the bread Read more…

Cloud Gives DNA Compiler Wings

Aug 5, 2014 |

Imagine being able to turn bacteria into molecular factories, capable of producing everything from earth-friendly biofuels to personalized medicines? This is the promise of synthetic biology, which has made remarkable advances over the last decade, taking tools and concepts from physics, engineering and computer science to design new biological systems. One of the foremost researchers Read more…

‘Sailfish’ Accelerates Gene Expression Analysis

Apr 24, 2014 |

“Sailfish” is a new computational method out of Carnegie-Mellon University and the University of Maryland that speeds up RNA sequencing analysis by a factor of 20 or greater. The method – dubbed Sailfish after the super-speedy fish – provides quantification estimates of gene expression much faster than previous methods such that a job that once Read more…

Illumina Establishes $1,000 Genome

Jan 15, 2014 |

Genomics moves rapidly. Not long after the first human genome was sequenced in 2003 at a cost of $3 billion, the biotech industry set its sights on the $1,000 genome mark. Realizing this vision has been a primary goal of the sequencing community for nearly a decade, and now it seems that the $1,000 genome Read more…

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