aci-ref.org

Category: Life Sciences

  • HTC computing enables knee research

    High-throughput computing plays pivotal role in knee biomechanics research

  • Island Facilitation

    Foster’s rule (also known as the island rule or the island effect) is an ecogeographical rule in evolutionary biology stating that members of a species get smaller or bigger depending on the resources available in the environment. Source: https://en.wikipedia.org/wiki/Foster’s_rule Cyberinfrastructure at the University of Hawaii is relatively new and small compared to the other organizations…

  • HIV elite controllers

    High-throughput computing, HIV and the mystery of ‘elite controllers’

  • Microbial communities and rapid evolution

    Microbial communities may inform understanding of rapid evolution Lauren Michael, a research computing facilitator at the Center for High Throughput Computing (CHTC), says researchers tend to use the CHTC resources for two reasons: they have massive volumes of data or a need for incredibly complex computations. Bontrager has a bit of both, and uses the…

  • Using the Grid to Understand Crops

    UW botanist harnesses the grid to illuminate crop growth Spalding’s Birge Hall lab is pretty far removed from conventional dirt-under-the-nails botany. In one room, a row of stationary cameras bathed in red light train in on Petri dishes that contain seedlings growing in a gel. These cameras take pictures every two minutes, producing rich time-lapse…

  • Facilitating data transfer

    Genomics research is one of the largest drivers in generating Big Data for science, with the potential to equal, if not surpass, the data output of the particle physics community. Like physicists, university-based life-science researchers must collaborate with counterparts and access data repositories across the nation and globe. The National Center for Biotechnology Information (NCBI)…

  • Big data and Alzheimer’s detection

    Campus big data project may point the way to Alzheimer’s early detection The team uses the Center for High Throughput Computing (CHTC), supported by UW-Madison and the Morgridge Institue, to segment MRI brain images that in some cases can take 12-24 hours for a single brain. “For many hundreds of brain scans, we need a…

  • Video processing on HPC

    Video processing on HPC

    Currently, all users of a special microscope that generates terabytes of data must use a Windows workstation for data processing. Bob adapted this PC workflow to Harvard’s HPC environment; this now provides flexibility & higher throughput for the lab’s image processing needs. “To help us start tackling this challenge, we greatly benefited from the help…

  • HPC bioinformatics and transcriptomics

    “I am a sixth year graduate student in the Department of Organismic and Evolutionary Biology. I started a transcriptomics project with little experience in coding and no experience in high powered computing (HPC). Without Bob Freeman’s work through ACI-REF I do not think I would have been able to complete my bioinformatics project. I was…

  • Connecting researchers and compute resources

    Advanced Computing Initiative helps UW-Madison researchers sift and winnow data The Advanced Computing Initiative (ACI) links researchers and computing resources to maximize productivity.