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Designing Life’s Layered Circuits: Tools of the Trade

Synthetic biology moves beyond the whiteboard.

In synthetic biology labs around the world, brainstorming has often begun at the same place: in front of a whiteboard. Marker in hand, researchers jot down the parts needed to form a new circuit,...
Jun, 18, 2014
Reaching Under the Hood of a 20-year-old Musculoskeletal Model

Confidence boost for modelers

It’s often said that all models are wrong, but some are useful. And one model that certainly falls in the “useful” category is the human lower-limb model that Scott Delp published...
Jun, 01, 2010
The Institute for Systems Biology

Pursuing the frontiers of systems biology in an interdisciplinary, non-academic enviroment

The Institute for Systems Biology (ISB) was founded in Seattle, Washington in 2000 by Leroy Hood, MD, PhD, Alan Aderem, PhD, and Reudi Aebersold, PhD. Five years later, they are pursuing the...
Apr, 01, 2006
Homing in on the Minimum Genome
Scientists have long wondered how many genes are necessary to support life. This knowledge could be used to construct new forms of artificial life to efficiently produce better biofuels or drugs....
Jan, 01, 2008
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
An Automated Supertree

A Model for Extracting Literature-based Knowledge

Too much scientific knowledge is buried in published literature. Case in point: The phylogenetic relationships among microbial species are locked into numerous publications about individual species...
Phylogenetics
Nov, 11, 2017
Democratizing Integrative Biology

The importance of developing and deploying tools for the quantitative clinician scientist

The word Om (or Aum) has many meanings in ancient Hindu philosophy, one of which is “that which contains all other sounds.” The meaning has relevance to the now commonly used suffix...
Jun, 01, 2010
3D Angiogenesis Modeled

CompuCell-3D models behaviors rather than genes

Researchers have successfully simulated how growing blood vessels affect the sizes and shapes of tumors using a 3-D model based solely on how cells behave—without reference to intracellular...
Jan, 01, 2010
New Algorithm Finds Stories in Biomedical Literature

Algorithm joins related publications in a chain from start to finish

A good story ties up all the loose ends. A new data-mining tool takes a stab at doing the same. Dubbed storytelling, the algorithm may make it easier to unearth unexpected connections in the...
Jan, 01, 2007
Computational Biomechanics: Making Strides Toward Patient Care

Moving from intuition to evidence-based intervention

To understand how muscles contract and joints flex, researchers have dissected cadavers and experimented with animals. They can describe how bones, muscles, and tendons connect in a complicated...
Jan, 01, 2007
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