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Error! – What Biomedical Computing Can Learn From Its Mistakes

How errors in data, software, and methodology can teach us how to do better

In 2006, a paper in Nature Medicine suggested a novel and potentially revolutionary method for predicting patient responses to cancer therapies using gene signatures. The finding piqued the interest...
publication, reproducible research, statistics, validation
Sep, 01, 2011
Dock This: In Silico Drug Design Feeds Drug Development

As algorithms evolve, computing power explodes, and scientists solve a greater number of 3-D protein structures, computer-aided design has the potential to dramatically cut the cost and time of drug discovery

Once upon a time, not long ago, HIV/AIDS was a scourge, killing anyone who contracted the deadly virus. Now, many people are living with the disease, which they control with drugs initially developed...
Jul, 01, 2007
COMPUTATIONAL DRUG DESIGN: new Tricks for Old Drugs

Computation can speed up the time it takes to find new binding partners for old drugs

When cheap drugs are needed fast, researchers and drug companies are increasingly turning to an interesting short-cut: repurposing existing drugs for new uses. Because drugs exert multiple actions in...
docking, drug design, drug repurposing
Apr, 01, 2011
Turning Therapeutic Antibodies into Better Drugs

A computer algorithm manipulates antibodies to predict which forms will bind their targets more tightly

The word “antibody” conjures images of our bodies fighting off bacteria and viruses. But because they can latch onto their targets with great precision, antibodies are also used to treat...
Jan, 01, 2008
Dogs, Doses, and Devices: The FDA's Ambitious Plans for Computational Modeling

Computational modeling can help fill gaps in how we develop and review new drugs and devices

What role does computational modeling play at the United States Food and Drug Administration (FDA)?  If you ask Paul Watkins, MD, director of the Hamner—University of North Carolina...
devices, drug discovery, FDA, modeling
Sep, 01, 2011
Connecting the (Microarray) Dots from Drug to Disease

Connectivity Map helps connect drugs and diseases

Normal cells, diseased cells and cells on drugs share a common language: They all produce their own patterns of gene expression. And the patterns can be compared in useful ways—given a disease...
Jan, 01, 2007
Where Tuberculosis Meets Computation: 10 Points of Intersection

Computation offers a window into a disease often described as a black box

The growing threats of multi-drug resistant (MDR) and extensively drug resistant (XDR) tuberculosis (TB) are spurring worldwide interest in faster and more innovative research approaches, such as...
Jun, 06, 2012
Side Effects in silico
Many new drugs carry a risk that they will cause more problems than they cure. That’s because a drug intended to bind one protein might also bind others. In an effort to address that problem,...
Apr, 01, 2008
Simulations Find Possible HIV Achilles’ Heel

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
Swine Dynamics
The antiviral drugs Tamiflu and Relenza target a key flu protein—neuraminidase—preventing it from doing its job of releasing virus particles from infected cells into the body. The type of...
Jul, 01, 2009
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