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Network Biology: Converging on Answers to Complex Diseases. Kristin Sainani, PhD. Network biology is allowing scientists to convert their cellular parts lists into insights about complex diseases. Big Data Feeds Understanding of Obesity. How data about genes, physical activity, and the environment are yielding insights about obesity. Can Big Data Stop Opioid Abuse? Deep Learning and the Future of Biomedical Image Analysis. FROM OUR CURRENT ISSUE. What Value Could Fractals Add to Biomedical Image Analysis?

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Network Biology: Converging on Answers to Complex Diseases. Kristin Sainani, PhD. Network biology is allowing scientists to convert their cellular parts lists into insights about complex diseases. Big Data Feeds Understanding of Obesity. How data about genes, physical activity, and the environment are yielding insights about obesity. Can Big Data Stop Opioid Abuse? Deep Learning and the Future of Biomedical Image Analysis. FROM OUR CURRENT ISSUE. What Value Could Fractals Add to Biomedical Image Analysis?
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Biomedical Computation Review | biomedicalcomputationreview.org Reviews

https://biomedicalcomputationreview.org

Network Biology: Converging on Answers to Complex Diseases. Kristin Sainani, PhD. Network biology is allowing scientists to convert their cellular parts lists into insights about complex diseases. Big Data Feeds Understanding of Obesity. How data about genes, physical activity, and the environment are yielding insights about obesity. Can Big Data Stop Opioid Abuse? Deep Learning and the Future of Biomedical Image Analysis. FROM OUR CURRENT ISSUE. What Value Could Fractals Add to Biomedical Image Analysis?

INTERNAL PAGES

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1

Joining the Atomic Ballet | Biomedical Computation Review

http://www.biomedicalcomputationreview.org/content/joining-atomic-ballet

Joining the Atomic Ballet. Danceroom spectroscopy meets molecular dynamics simulation. Colored atoms bounce off one another on a vast wall at the Stanford Art Gallery on the Stanford University campus. But when visitors approach, their energy avatars appear on the wall and the atoms react: Sparkly blue ones accumulate inside the avatars while others bounce off them, scattering and gathering in response to their tilting, dancing bodies. This is Danceroom Spectroscopy. Someday soon, Glowacki hopes to inves...

2

Using Low Rank Models | Biomedical Computation Review

http://www.biomedicalcomputationreview.org/content/using-low-rank-models

Using Low Rank Models. In the short article below, the author describes how you can use low rank models to understand your data. All submitted comments are reviewed, so it may be a few days before your comment appears on the site. The content of this field is kept private and will not be shown publicly. What code is in the image? Enter the characters shown in the image. The Top Ten Advances of the Last Decade and The Top Ten Challenges of the Next Decade. A recognition of biocomputings successes. 01/02/1...

3

Binary Breathing | Biomedical Computation Review

http://www.biomedicalcomputationreview.org/content/binary-breathing

2004 grant to create a 3-D model of the respiratory tract. In September 2004, researchers at Pacific Northwest National Laboratory (PNNL) in Richland, Washington, received a $10 million grant to create a three-dimensional imaging and computer model of how the respiratory tract interacts with particles carried in the air. Ultimately, the researchers hope the effort will lead to a better understanding of what happens when people inhale either toxic substances or medications. How variable are we? Another im...

4

Unlocking the Genetics of Complex Diseases: GWAS and Beyond | Biomedical Computation Review

http://www.biomedicalcomputationreview.org/content/unlocking-genetics-complex-diseases-gwas-and-beyond

Unlocking the Genetics of Complex Diseases: GWAS and Beyond. Building upon the clues provided by GWAS to gain new insights. These criticisms cast a long shadow over GWAS, but they were largely unfounded. “I’ve been quite bemused and surprised by the strange criticism of GWAS. Because it’s telling us something about the state of nature. And we shouldn’t be apologetic for that. That’s just the way it is,” says Peter Visscher, PhD. Professor and chair of quantitative genetics at the University of Queensland.

5

Assembling the 3-D Genome: A Puzzle with Many Solutions | Biomedical Computation Review

http://www.biomedicalcomputationreview.org/content/assembling-3-d-genome-puzzle-many-solutions

Assembling the 3-D Genome: A Puzzle with Many Solutions. Using computational approaches to assemble plausible 3-D structures. As a result of experimental techniques developed about a decade ago, researchers now have data that can be used to reconstruct how the genome is arranged inside the nucleus. This 3-D structure likely plays a role in determining cellular function by affecting cells’ ability to access, read and interpret genetic information. Converting Frequencies to Distance. Professor of genome sc...

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Resume | Like A Radio Telescope

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Like A Radio Telescope. Keeping an eye out for perturbations in the universe. Pitch, research, and write stories about science. And Physical Review Focus. Reported and wrote stories for Science News. 8216;s website and magazine. Reported and wrote stories for New Scientist. 8216;s website and magazine, primarily about space and physics. Writing Intern, Wired.com. Reported and wrote stories for Wired Science. Writing Intern, SLAC National Accelerator Lab. Reported and wrote stories for. Analyzed Martian s...

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People

http://simbios.stanford.edu/people.htm

Russ Altman, M.D., Ph.D. Professor of Genetics, Bioengineering, Medicine and Computer Science (by courtesy). Scott L Delp, Ph.D. Professor of Bioengineering, Mechanical Engineering. And Orthopaedic Surgery (by courtesy). Vijay S Pande, Ph.D. Professor of Chemistry and Structural Biology. Joy Ku, Ph.D. Simbios Scientific Advisory Board. Andrew McCammon, Ph.D., UC San Diego. Chris Johnson, Ph.D., University of Utah. Klaus Schulten, Ph.D., University of Illinois. Grace Peng, Ph.D., NIH. BJ Fregly, Ph.D.

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Publications

http://simbios.stanford.edu/publications.htm

Adams, B., Wicke, M., Ovsjanikov, M., Wand, M., Seidel, H.-P., and Guibas, L.J. (2010). Meshless Shape and Motion Design for Multiple Deformable Objects. Http:/ dx.doi.org/10.1111/j.1467-8659.2009.01536.x. Agarwal-Harding, K.J., Schwartz, M.H., Delp, S.L. (2010). Variations of hamstrings lengths and velocities with walking speed. Arnold, E.M., Ward, S.R., Lieber, R.L., and Delp, S.L. (2010). A model of the lower limb for analysis of human movement. Ann Biomed Eng,. 6 (2), pp 434 437. Fleming, T.C&#46...

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Papers and Relevant Publications

http://www.genomics.senescence.info//papers.html

A curated database of candidate human ageing-related genes and genes associated with longevity and/or ageing in model organisms. A curated database of genes associated with dietary restriction in model organisms either from genetic manipulation experiments or gene expression profiling. Database of human genetic variants associated with longevity. Projects focused on gene expression profiling of ageing and of dietary manipulations of ageing, such as caloric restriction. Analyses using the AnAge database.

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Biocomputation Research

http://simbios.stanford.edu/BioAlg.htm

The scope of our Center is broad enough to encompass many biomedical research domains, and yet is focused in its mission to use physical and mathematical modeling to create accurate simulations of biological structure and function. In analyzing the driving biological problems, we have found abundant commonalities to justify the development of a common simulation platform. Data. The Simulation Tool Kit (SimTK) is available at Simtk.org. And can be downloaded from Simtk.org/home/simtkcore. Our continuuing ...

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About Simbios

http://simbios.stanford.edu/summary.htm

Simbios is the NIH Center for physics-based Simulation of Biological Structures. Simbios provides infrastructure, software, and training to help biomedical researchers understand biological form and function as they create novel drugs, synthetic tissues, medical devices, and surgical interventions. To encourage collaboration in building accurate biological models and simulations, Simbios also provides the biomedical community with https:/ simtk.org. SimTK core is open-source software developed by experie...

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N) { preg match('/(.{' . $n . '}.*? B/', $str, $matches); return rtrim($matches[1]) . $delim; } else { return $str; } } require once('lib/simplepie.inc'); $feed = new SimplePie(); / Add comma-separated URLs to set feed url to include multiple feeds $feed- set feed url(array('http:/ simbios.stanford.edu/news.xml') ; / Adjust set item limit to control number of items output $feed- set item limit(40); $feed- init(); $feed- handle content type();? Get description(),1000);? Source string . ".

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Administration

http://simbios.stanford.edu/Administration.htm

Administration of the Center. The highlights of our administrative plan include:. Continued co-leadership from Drs. Russ Altman and Scott Delp, whose research interests range from protein mechanics to clinical applications. Dr. Altman is a practicing physician and expert in bioinformatics. Dr. Delp is a bioengineer and an expert in biomechanical modeling and simulation. Strong institutional support from Stanford, including generous allocations of space, student support funds, and seed research funds.

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Network Biology: Converging on Answers to Complex Diseases. Kristin Sainani, PhD. Network biology is allowing scientists to convert their cellular parts lists into insights about complex diseases. Big Data Feeds Understanding of Obesity. How data about genes, physical activity, and the environment are yielding insights about obesity. Can Big Data Stop Opioid Abuse? Deep Learning and the Future of Biomedical Image Analysis. FROM OUR CURRENT ISSUE. What Value Could Fractals Add to Biomedical Image Analysis?

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Biomedical Computation Review

NIH Launches a United Ecosystem for Big Data. 12 Big Data to Knowledge Centers of Excellence funded. Stem Cell (Re)Programming: Computing New Recipes. Sarah C.P. Williams. Leveraging big data, modeling, and computational biology to create new protocols. Assembling the 3-D Genome: A Puzzle with Many Solutions. Using computational approaches to assemble plausible 3-D structures. Unlocking the Genetics of Complex Diseases: GWAS and Beyond. Building upon the clues provided by GWAS to gain new insights. Can t...

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Biomedical Computation Review

Network Biology: Converging on Answers to Complex Diseases. Kristin Sainani, PhD. Network biology is allowing scientists to convert their cellular parts lists into insights about complex diseases. Big Data Feeds Understanding of Obesity. How data about genes, physical activity, and the environment are yielding insights about obesity. Can Big Data Stop Opioid Abuse? Deep Learning and the Future of Biomedical Image Analysis. FROM OUR CURRENT ISSUE. What Value Could Fractals Add to Biomedical Image Analysis?

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