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simulation in Biological News

New computer simulation helps explain folding in important cellular protein

Athens, Ga. Most parts of living organisms come packaged with ribbons. The ribbons are proteinschains of amino acids that must fold into three-dimensional structures to work properly. But when for any reason the ribbons fold incorrectly, bad things can happen, and in humans misfolded-protein diso...

New simulation shows consequences of a world without Earth's natural sunscreen

The year is 2065. Nearly two-thirds of Earth's ozone is gone -- not just over the poles, but everywhere. The infamous ozone hole over Antarctica, first discovered in the 1980s, is a year-round fixture, with a twin over the North Pole. The ultraviolet (UV) radiation falling on mid-latitude cities l...

ORNL supercomputer simulation wins prize for fastest-running science application

OAK RIDGE, Tenn., Nov. 20, 2008 -- A team led by Thomas Schulthess of the U.S. Department of Energy's Oak Ridge National Laboratory received the prestigious 2008 Association for Computing Machinery (ACM) Gordon Bell Prize Thursday after attaining the fastest performance ever in a scientific superc...

Rhode Island Hospital simulation center examines benefits and applications of medical simulation

PROVIDENCE, RI Emergency medicine physicians and simulation experts from Rhode Island Hospital discuss the benefits of advanced medical simulation in five manuscripts appearing in the November 2008 issue of Academic Emergency Medicine (now available online). The articles describe how simulation...

Actor-robots 'staff' part of new $5M simulation training center

A medical student places a chest tube in a patient lying on an operating table, while another student conducts a colonoscopy. Everything is just as it would be in a real OR or treatment room, except that the patients wont be harmed or complain if mistakes are made theyre robots. These high-tech,...

Virtual human in HIV drug simulation

The combined supercomputing power of the UK and US national grids has enabled UCL (University College London) scientists to simulate the efficacy of an HIV drug in blocking a key protein used by the lethal virus. The method an early example of the Virtual Physiological Human in action could one ...

Virginia Tech's System X supercomputer provides super tool for simulation of cell division

Virginia Tech researchers in computer science and biology have used the university's supercomputer, System X, to create models and algorithms that make it possible to simulate the cell cycle -- the processes leading to cell division. They have demonstrated that the new mathematical models and numer...

Computer simulation hints at new HIV drug target

For more than a year, researchers watched patiently as a few computer-simulated HIV protease molecules squirmed into more than 15,000 slightly different shapes. In real time, this contortion takes only a fraction of a second. In the end, however, this suspended animation paid off, as the simulation...

Largest computational biology simulation mimics life’s most essential nanomachine

With preliminary results from a study in Botswana, Harvard School of Public Health researchers have found that people with HIV-1 subtype C in resource-poor settings, who receive antiretroviral (ARV) therapy, can achieve comparable results to those in the developed world. A fully supported health ca...

Sensor web simulation investigates technique to improve prediction of pollution across the globe

For asthmatics and for anyone with respiratory problems, air pollution can significantly impair simple everyday activities. NASA is trying to tie together satellites and stations on the ground to develop a "sensor web" to track this pollution and improve air quality forecasts. Understanding how t...

NYU chemists use computer simulation to enhance understanding of DNA transcription

New York University chemists have employed a computer simulation whose results have enhanced scientific understanding of the DNA transcription process. The study, funded by the National Institutes of Health, appears in the June 7 issue of the Proceedings of the National Academy of Sciences. Previ...

MSI releases 'moleculizer' - a new approach to simulation of intracellular biochemical networks

Dr. Roger Brent, President and Director of Research at the Molecular Sciences Institute ("MSI") , announced today the release of a new approach to simulation of intracellular biochemical networks in the January 2005 edition of Nature Biotechnology. The research article, entitled "Automatic gene...

AGU journal highlights -- Aug. 6, 2009

...ts of LCC, Pitman et al. analyze seven different climate models. Each model simulation is run several times, with prescribed land cover reflecting conditions in 1...as deep as 500 meters (1,640 feet) below the surface. The authors develop a simulation to show that it is possible to use high-resolution SSH measurements, combin...

Opening a new window on daylight

... Tropical regions without losing the cooling effect of shades. Details are reported in the International Journal of Engineering Systems Modelling and simulation this month. Lerdlekha Tanachaikhan and colleagues in the School of Environment, Resources and Development, at the Asian Institute of Technology in...

Bioterrorism and disaster preparedness explored in special issue of Medical Decision Making

...g" The authors examined a large selection of published mathematical and simulation health sector disaster response models to generate a set of best practice g...t was possible for the clinic to reach its target and that using a computer simulation could help them determine the most efficient use of staff, machinery, suppl...

Early detection and quick response are key to defense against anthrax attack

...ection and treatment are essential, and any delay beyond three days would overwhelm hospitals with critically ill people. The results of a computer simulation study appear in the July/August edition of the journal Medical Decision Making -- one of two studies by Dr. Nathaniel Hupert of Weill Cornell Medica...

Munich researchers discover new target for tailored antibiotics

...cal environment of the active site cavity. The crystal structure opened the door to a detailed examination of the reaction mechanism using computer simulation and mutagen experiments, in which E. coli bacteria are coerced into synthesizing defective IspH enzymes. Thus, the X-ray structure, kinetic measurem...

Tracking down the causes of multiple sclerosis

...ment should have considerably fewer side effects than the previous, rather unspecific approaches. The new animal model, which provides a far better simulation of the human form of the disease, has prompted surprising insights into the role of the B cells in the spontaneous development of MS. This and the ast...

Simulating pharmaceutical and personal care product transport

...ime of solutes in soil macropores may be too short for sorption equilibration which increases the risk for leaching. Physically based solute transport simulation models are widely used in environmental risk assessment for pesticides. These models may also be applicable for PPCPs when their physical and chemical...

Non-wovens as scaffolds for artificial tissue

...terials IWM in Freiburg and Halle have developed a simulation model which answers these questions and characterizes the fleeces. "The simulation reproduces the mechanical properties of the fleece...d technology, suitable experimental techniques and simulation methods have a wide range of applications. ...

Story tips From the Department of Energy's Oak Ridge National Laboratory -- May 2009

...irmation . . . Fusion energy took a small step forward with a successful simulation performed on Oak Ridge National Laboratory's Jaguar supercomputer. A team l...ost its temperature. While this has long been believed to be the case, this simulation provides proof and sets the stage for the next step, which would use all 15...

Crop models help increase yield per unit of water used

...onomy Journal . The papers explore how four of the simulation models were used to simulate yield, water use, and...ganizer Steve Evett, "Future studies exploring WUE simulation should include evaporation or transpiration measur...ap that exists between what can be done using crop simulation models and what policymakers and managers need fro...

Social separation stops flu spread, but must be started soon

... A disease spread simulation has emphasized that flu interventions must be imposed quickly, if they are ...mmunity with a population of approximately 30,000 (Albany, Australia) using simulation software engineered by UWA's Dr Joel Kelso. Milne said, "Our results sugges...

Vanderbilt engineers play key role in new DOE energy frontier research center

...a co-principal investigator along with David R. Cole, Sheng Dai and Steven Overbury from ORNL and will be overseeing the center's theory, modeling and simulation efforts. "The EFRCs represent a very important investment in the basic research that will underpin new energy sources, energy storage methods and e...

Limping rat provides sciatica insights

...t combine to make up the sciatic nerve. These roots are the parts of the nerve that pass through openings in the spine to the spinal cord. Surgical simulation of nerve compression in rats was led by Mohammed Shamji, a neurosurgery resident and recent Ph.D. graduate working in the laboratory of senior researc...

Toward a systems biology map of iron metabolism

...t to identify changes that take place in healthy and diseased tissues. The addition of kinetic information to our structural network should permit the simulation of iron metabolism in different tissues as well as under conditions of health and disease. This should provide us with a much needed tool to look at t...

A glimpse of future GMES Sentinel-1 radar images

... time, include very frequent spaceborne radar images over three different test sites throughout the growing season and thus provide an excellent first simulation and visualisation of Sentinel-1 capabilities to support land applications," commented Evert Attema from ESA's Sentinel-1 project. In addition to t...

Researchers report 'moderately large' potential for red tide outbreak in Gulf of Maine region

... the resulting growth and transport of the toxic cells using computer models. Working together over the last decade, the team has developed a computer simulation that incorporates weather conditions, river runoff, and various wind and current patterns to predict the intensity and location of blooms of the toxic...

Marine scientists warn of potential for spring, summer red tide outbreak in Gulf of Maine

...ave been working with Anderson to better understand the growth and transport of the toxic cells using computer models. They've developed a computer simulation that incorporates weather conditions, river runoff and various wind and current patterns to predict the intensity and location of blooms in the Gulf o...

Grouping muscles to make controlling limbs easier

...echniques from control theory, the researchers chose the muscle combinations that let the frog's hind leg do what it wants to do most effectively. The simulation showed that by choosing the most effective balance of muscle synergies, the researchers could control movement without degrading performance. "Havi...

Harnessing cloud computing for data-intensive research on oceans, galaxies

...e research at the university. Instead of running a simulation to test a single hypothesis, climate scientists ar...nteractivity for tens of thousands of gigabytes of simulation results. He created a tool, GridFields, to visualize the polygonal mesh of climate simulation output, and is now working to redesign GridFields ...

Towards a natural pacemaker

...lopment of practical biological pacemakers by allowing more complete and rapid assessment of individual channel mutations through combined culture and simulation studies prior to full testing in animal models." ...

Collaboration leads to success: Most powerful computer of its kind in western N.Y. available worldwide

...nally-demanding problems. New Methods Allow Scholars to Address Previously Unsolvable Problems Cyberinfrastructure sits at the core of modern simulation and modeling, which creates new methods of investigation that allow scholars to address previously unsolvable problems, according to Miller who holds ...

Straw bale house survives violent shaking at earthquake lab

...the University of Nevada, Reno, and is a licensed Professional Civil Engineer. The research was conducted at the Network for Earthquake Engineering simulation Consortium, Inc. (NEES) shake-table site at the University of Nevada, Reno as a NEES Management, Operations and Maintenance award shared-use project. ...

Heinz Maier-Leibnitz Prizes 2009: Six young researchers recognized for outstanding achievements

...tart-up phase in order to arrive at effective countermeasures that will ultimately make cheaper and higher quality production possible. The models and simulation methods developed by Lanza are both scientifically relevant and economically significant in industrial practice. Since 2008 she has held a "shared pro...

Historical increase in corn yield -- it's in the roots

...t included scientists from UQ, Queensland Department of Primary Industries, and Pioneer. Their approach involved the use of virtual plant computer simulation technologies. They modified an advanced crop model to take account of known effects on crop growth associated with varying leaf erectness and/or root ...

Engineering bouncing babies, 1 at a time

...professor at New York's Columbia University, is continuing to provide "stimulating evidence" to the IVF medical community. He is working on a computer simulation program on embryo transport in the uterus, in both natural conception or after IVF procedures, to model how and when artificially inseminated embryos ...

Forget the freezer: Research suggests novel way to control water behavior

... molecular behavior and suggest new research avenues to pursue. As next steps, the researchers intend to explore how changing the conditions in the simulation alters the behavior of water. This includes using hypothetical walls that are not perfectly smooth, varying the temperature, and using theoretical wat...

Honest crabs, power to the hungry, nice mice and clever meerkats: News from the American Naturalist

...s created a theoretical model that simulates the movements of a large group in which members have conflicting plans about where they'd like to go. The simulation showed that individuals who valued their preferred destination over group cohesion often led the groupeven if they were in the minority. Those who wer...

When fish farms are built along the coast, where does the waste go?

...civil and environmental engineering and co-director of Stanford's Woods Institute for the Environment. But early results from a new Stanford computer simulation based on sophisticated fluid dynamics show that the icky stuff from the pens will travel farther, and in higher concentrations, than had been generall...
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