Molecular dynamics simulations spot alternative drug target
A blindside attack on HIV-1 protease might just combat drug-resistant strains of HIV, according to simulations run by researchers at the University of California, San Diego. When the simulations shut...
Oct, 01, 2010
Central repository of information on genes and proteins requires participation by the scientific community
If you build it, will they come? That’s the question on everyone’s mind after the launch of two pioneering initiatives in community annotation: WikiProteins and Gene Wiki, announced,...
Oct, 01, 2008
Model fits experimental evidence
In biology textbooks, the carefully rendered cross-section of an E. coli cell often resembles a well-organized and spacious apartment, with everything in its place and ample room for movement. But a...
Jun, 01, 2010
Computing using time steps -- a necessary approximation
Time flows like a continuous, steady river. And it moves forward—never back. These facts create inherent challenges for computer simulations of biological molecules in motion.
It would...
Jun, 19, 2013
Like humans, cells are affected by their physical environment, their neighbors, the context in which they exist. Much research has focused on the chemical signals that control cell behavior. But...
Sep, 01, 2011
Modelers are using recent gains in computational power to consider the complex interactions of hundreds or thousands of macromolecules at once--a necessary first step toward whole cell simulation
Molecules in cells behave like people in crowded subway cars. Because they can barely budge or stretch out without bumping into a neighbor, they move more slowly, smush themselves into more compact...
Apr, 01, 2011
Gene therapy to correct inherited illnesses hinges on successful delivery of DNA into a person’s cells. Most gene therapists work with viruses to ferry their DNA cargo. Yet the body tends to...
Oct, 01, 2009
2-D simulation shows angiogenesis as it happens
Microscopic capillaries grow on demand, snaking toward hungry cells needing their blood supply. Understanding how to control this process could help scientists promote wound healing or halt cancer in...
Jan, 01, 2007
Can the complexities of biology be boiled down to Amazon.com-style recommendations? The examples here suggest possible pathways to an intelligent healthcare system with big data at its core.
“We have recommendations for you,” announces the website Amazon.com each time a customer signs in.
This mega-retailer analyzes billions of customers’ purchases—nearly $...
Jan, 02, 2012
To understand biology—and provide appropriate medical care—scientists need to understand interactions across multiple scales. Hence the Physiome.
This is the reality of human biology: events span a 109 range in lengthscale (molecular to organismal) and a 1014 range in timescale (molecular movement to years). To understand this biology—...
Jun, 01, 2010
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