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The recent advances made in high throughput genomic sequencing allow researchers to accurately determine the genetic make-up of an individual. Sharing this data across research institutes has proven to be challenging as the amount of data and available bandwidth cause large delays. Here, we present a network of dynamic lightpaths dedicated to the life sciences which connects research groups within...
We describe our experiences in creating multigigabit links using the GÉ ANT Bandwidth on Demand (BoD) Client Portal and report measurement and analysis of the performance of connections using both FPGA and PC based network testing tools. This research was performed as part of a work package for the EC funded NEXPReS project.
This talk will demonstrate our current remote experimentation capabilities deployed at the Australian Synchrotron and la Trobe university, as well as remote data transfer services deployed at the above locations and at Bragg, ansto, metadata extraction tool, MyTardis node's, remote analysis and visualisation environments for medical imaging and IR spectroscopy and the use of high resolution multi...
Advanced networks are an essential element of data-driven science enabled by next generation cyberinfrastructure environments. Computational activities increasingly incorporate widely dispersed resources with linkages among software components spanning multiple sites and administrative domains. We have seen recent advances in enabling on-demand network circuits in the national and international backbones...
Scientific experiments in a variety of domains are producing increasing amounts of data that need to be processed efficiently. Distributed Computing Infrastructures are increasingly important in fulfilling these large-scale computational requirements.
IRMIS: The care and feeding of a generalized relatively relational database for accelerator components with a connection to the real time EPICS Input output controllers. This paper describes a relational database approach to documenting and maintaining; the feeding. It describes the automated process used to generate accelerator or synchrotron component data for the relational tables and the role...
New developments in detector technology allow the acquisition of micrometer-resolution x-ray transmission images of specimens as large as a few millimeters at unprecedented frame rates. The high x-ray flux density generated by the Advanced Photon Source (APS) allows for detector exposure times ranging from hundreds of milliseconds to 150 picoseconds. The synchronization of the camera with the rotation...
The advantages of web applications have already got attention in major physical research facilities like Canadian Light Source (CLS). It is the accessability of web applications that makes them preferred to native desktop application in some experimental control scenarios. This short paper presents two web applications that were mainly developed at CLS — Science Studio for remote access and collaboration...
Large-scale simulations are increasingly used to evaluate potential public health interventions in epidemics such as the H1N1 pandemic of 2009. Due to variations in both disease scenarios and in interventions, it is typical to run thousands of simulations as part of a given study. This paper addresses the challenge of visualizing the results from a large number of simulation runs. We describe a new...
Video is exploding as a means of communication and expression, and the resultant archives are massive, disconnected datasets. Thus, scholars' ability to research this crucial aspect of contemporary culture is severely hamstrung by limitations in semantic image retrieval, incomplete metadata, and the lack of a precise understanding of the actual content of any given archive. Our aim in the Large Scale...
In the past few years in the biomedical field, availability of low-cost sequencing methods in the form of next-generation sequencing has revolutionized the approaches life science researchers are undertaking in order to gain a better understanding of the causative factors of diseases. With biomedical researchers getting many of their patients' DNA and RNA sequenced, sequencing centers are working...
High throughput sequencing assays have given rise to the field of genomics and transformed biomedical research into a computational science. Due to the large size of genomics datasets, high-performance computing is essential for analysis. Galaxy (http://galaxyproject.org) is a popular Web-based platform that can be used for all facets of genomic analyses, including data retrieval and integration,...
The field of Culturomics exploits “big data” to explore human society at population scale. Culturomics increasingly needs to consider geographic contexts and, thus, this research develops a geospatial visual analytical approach that transforms vast amounts of textual data into emotional heatmaps with fine-grained spatial resolution. Fulltext geocoding and sentiment mining extract locations and latent...
This paper examines the needs of emerging applications of High Performance Computing by the Humanities, Arts, and Social Sciences (HASS) disciplines and presents a vision for how the current academic HPC environment could be adapted to better serve this new class of “big data” research.
This paper demonstrates a series of analyses to calculate new clusters of shared subject headings among items in a library collection. The paper establishes a method of reconstituting anonymous circulation data from a library catalog into separate user transactions. The transaction data is incorporated into subject analyses that use supercomputing resources to generate predictive network analyses...
Computational work is a vital part of many scientific studies. In materials science research in particular, theoretical models are often needed to understand measurements. There is currently a double barrier that keeps a broad class of researchers from using state-of-the-art materials science codes: the software typically lacks user-friendliness, and the hardware requirements can demand a significant...
Automated search of handwritten content is a highly interesting and applicative subject, especially important today due to the public availability of large digitized document collections. We describe our efforts with the National Archives (NARA) to provide searchable access to the 1940 Census data and discuss the HPC resources needed to implement the suggested framework. Instead of trying to recognize...
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