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Computing the Ravages of Time: Using Algorithms To Tackle Alzheimer’s Disease

Biomarker research, genetics, and imaging are all coming into play

In 1906, at a small medical meeting in Tübingen, Germany, physician Alois Alzheimer gave a now-famous presentation about a puzzling patient. At age 51, Auguste D.’s memory was failing...
Oct, 01, 2007
Structural Genomics: Exploring the 3D Protein Landscape

How increased coverage of the structure space is transforming the field of biology

When the human genome was completely sequenced in 2003, researchers were already pondering how biomedicine could make use of it.  One hope was that the sequences would lead to a greater...
Jan, 01, 2010
RNA Builder User Profile: Rick Russell, PhD

Through RNABuilder, Simbios brings computational modeling to Rick Russell’s lab at the University of Texas.

from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips   Rick Russell, PhD, associate professor of chemistry and biochemistry at the...
Oct, 01, 2009
The Eyes Have It: Biomechanical Models Explore Disorders of the Eye

Biomechanical models contribute to a better understanding of both the normal and the diseased eye.

Squint, and you can almost  make out that bird soaring over the horizon. But determining whether it’s a hawk or a raven will be nearly impossible for someone with myopia, also known as...
Feb, 19, 2013
Assembling The Aging Puzzle: Computation Helps Connect the Pieces

The complexity and variability of aging itself, along with the fragmented nature of researchers’ current understanding of aging, call for tools that can help scientists dig through mounds of data to find often subtle connections.

Jeanne Louise Calment of Arles, France rode a bicycle until she was 100 years old. When she gave up smoking at age 117, her doctor suspected it was out of pride. (She couldn’t see well enough...
Apr, 01, 2008
Reverse Engineering the Brain
For a century, neuroscientists have dissected, traced, eavesdropped on, and are now compiling a seemingly endless cast of players in the nervous system. As we keep gathering more and more molecular...
neuron, reverse engineer
Apr, 01, 2009
Prototype to Release: Software Engineering for Scientific Software

Set objectives and follow through

Having engineered several scientific software applications for public consumption, the authors know from experience that the process offers unique challenges. Typically, the algorithms being...
Oct, 22, 2012
The Ease and Grace of OpenSim 3.0

New release improves both GUI and API

OpenSim, the neuromuscular modeling and simulation software, is now available in a new digit: 3.0. The change (up from 2.4) reflects significant improvements that make this open source tool more...
OpenSim
Oct, 19, 2012
Vertex Classification in Graphs

How can they help us understand proteins?

Graphs, or networks, have been widely adopted in computational biology, with examples including protein-protein interaction networks, gene regulatory networks, and residue interaction networks in...
Jun, 20, 2013
Imaging Collections: How They're Stacking Up

As barriers to massive imaging collections fall, researchers can look at human systems in their entirety rather than in pieces

In the beginning there was the Visible Human. It broke new ground by gathering some 2,000 serial images from a death row inmate’s cadaver, and was the first time researchers had sectioned a...
Jul, 01, 2007
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