Researchers Turn to Supercomputing to Find Malaria's Soft Spot

Intellectual Ventures builds computer simulations to better understand how malaria spreads and how it responds to eradication efforts















Share on Tumblr


Early Wednesday afternoon, the supercomputer was running nine different research jobs. One of the jobs, which required 72 computer cores to perform, was a simulation of a potential polio program for India. The simulation included information about India's population (ages, population dispersal throughout the country, migration patterns and demographic data) and played out a scenario of how the disease might spread as people interacted with each other. "It's a probabilistic approach," Eckhoff says. "Some interactions lead to disease, some don't."

Intellectual Ventures has plans to further expand its supercomputer by adding nodes. The company's computer facilities have room to grow and can accommodate up to 3,000 cores without needing to change the facility's power and cooling systems. The researchers estimate that they could squeeze in up to 6,000 cores if investments were made to beef up power and cooling.

The demand for supercomputer power on a budget has attracted tech vendors to the high-performance computing space that have generally played in a smaller sandbox. Microsoft (through its Windows Azure Platform), Amazon (through its Amazon Web Services), and others are offering "cloud" services, whereby they use their massive data centers to host the data, software and computing resources for their customers, who access the information they seek through their desktop computers.

Microsoft earlier this week introduced an initiative that will focus specifically on offering hosted high-performance computing resources. "Our understanding is that the Microsoft Technical Computing Group is working on bringing 'technical computing,' supercomputing, to the masses," says John-Luke Peck, an Intelligent Ventures systems engineer, who points out that his company's supercomputer uses Microsoft software that can take advantage of parallel processing. "Their solution can and will bring opportunities to researchers, students, and others, that were not previously available."

Although much has been made of computing in the cloud, this is not an option for every research group, including Intellectual Ventures. The primary reason for building their own supercomputer is that some of their projects could have national security implications, which means those data cannot be exported to foreign countries (where many service providers have data centers), says Chuck Whitmer, a consulting physicist to Intellectual Ventures and the neutronics and modeling lead for TerraPower.

A secondary reason is that a distributed, cloud-based approach has more time delay in information transfer than when a system is on-site. Whereas Intellectual Ventures can, generally speaking, achieve a data transfer rate of 20 gigabits per second to get data from its computers to the supercomputer, Peck says, the researchers would probably not get even one-tenth of that speed if they used a supercomputer located offsite.



1 Comments

Add Comment
View
  1. 1. Bob_541 02:35 PM 5/21/10

    Yesterday GlaxoSmithKline made available, in the cloud, and for free to all, the Tres Cantos Antimalarial Set (TCAMS) of more than 13,500 screened compounds with activity inhibiting the Malaria parasite. It can be accessed through the cloud based chem. Informatics database of
    Collaborative Drug Discovery http://www.collaborativedrug.com/

    Reply | Report Abuse | Link to this
Leave this field empty

Add a Comment

You must sign in or register as a ScientificAmerican.com member to submit a comment.
Click one of the buttons below to register using an existing Social Account.

More from Scientific American

See what we're tweeting about

Scientific American Editors

  • docfreeride This season of Mad Men, I'm actively rooting for someone to kill Don Draper. Too much collateral damage if we wait for his redemption.
    18 minutes ago · reply · retweet · favorite
  • mdichristina @MRAKdesign Looks like rain for today--presume you sent it here?!
    22 minutes ago · reply · retweet · favorite
  • huler Trying, failing to spend money on Delta Airlines. Unnavigable website. 2+ hours hold time. But -- they promise to call me when it's my turn.
    1 hour ago · reply · retweet · favorite
More »

Free Newsletters


Get the best from Scientific American in your inbox

Solve Innovation Challenges

Powered By: Innocentive

  SA Digital

Latest from SA Blog Network

  SA Digital

Email this Article

Researchers Turn to Supercomputing to Find Malaria's Soft Spot

X
Scientific American Magazine

Subscribe Today

Save 66% off the cover price and get a free gift!

Learn More >>

X

Please Log In

Forgot: Password

X

Account Linking

Welcome, . Do you have an existing ScientificAmerican.com account?

Yes, please link my existing account with for quick, secure access.



Forgot Password?

No, I would like to create a new account with my profile information.

Create Account
X

Report Abuse

Are you sure?

X

Institutional Access

It has been identified that the institution you are trying to access this article from has institutional site license access to Scientific American on nature.com. To access this article in its entirety through site license access, click below.

Site license access
X

Error

X

Share this Article

X