A closer look at the curation of models discussed in The Physiome: A Mission Imperative
Multi-scale quantitative models need to be validated and reproducible if they are to be useful for clinical workflows, says Hunter. The Physiome infrastructure developed by Hunter, Dr Poul Nielsen...
Jun, 01, 2010
Using molecular dynamics (MD) software, scientists can simulate molecular movement to study biological phenomena that currently cannot be observed experimentally.
But the value of MD...
Jul, 01, 2009
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
How cell-centered models are adding fundamental insights into our understanding of cell behaviors
The cell is like our financial system: Even if you have a diagram of all the complex interactions going on, you still cannot intuit how the whole system will react when perturbed. Indeed, the cell...
Apr, 01, 2010
When you step on the gas pedal, you expect acceleration (and lots of it). Stomp on the brake to come safely to a stop in the rain. Finger the power-assisted steering wheel and the car obeys. Make a...
Oct, 01, 2009
Using computational models, researchers are gaining traction toward understanding what makes a stem cell a stem cell; how gene expression drives stem cell differentiation; why studying stem cell heterogeneity is important; and, ultimately, how stem cells control their fate.
To the casual observer, stem cells offer the almost magical promise of—Voila!—turning into exactly the kind of cell needed to repair an injured spinal cord or replace a damaged organ. And...
Apr, 01, 2010
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
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
Jay Humphrey at Texas A&M collaborates with Simbios on a fluid/solid/growth model of the cardiovascular system.
from http://biomedicalcomputationreview.org/content/simbios-bringing-biomedical-simulation-your-fingertips
A new model of arteries that simultaneously simulates fluid, solid, and growth...
Oct, 01, 2009
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