AtomSim: web-deployed atomistic dynamics simulator

J.B. Keith, J.R. Fennick, D.R. Nelson, C.E. Junkermeier, J.Y.Y. Lin, C.W. Li, M.M. McKerns, J.P. Lewis, B. Fultz,
Journal of Applied Crystallography, 43, 1553 (2010).

Uncertainty quantification via codimension-one domain partitioning and a new concentration inequality

T.J. Sullivan, M. McKerns, U. Topcu, H. Owhadi
Procedia – Social and Behavioral Sciences, 2(6), 7751 (2010).

An efficient method for computing steady state solutions with Gillespie’s direct method

A (Hypothetical) Data to Discovery Engine (v2)

Mark Stalzer, Caltech – CACR

Seminar given at “IST Lunch Bunch”
Tuesday November 2, 2010
12:00 PM
105 Annenberg

Abstract:
Moore’s law works for semiconductor-based detectors and there is an increasing flood of data being generated in astronomy, high energy physics, biology, and other sciences. Computation is essential for both (1) making predictions from theory and (2) the analysis of data from experiments. Is there a way to architecturally balance both needs in a high performance computing (HPC) system?

HPC systems are typically constructed from easily available parts, just organized differently and scaled to process extreme workloads. The most power efficient petascale machine as of 2010 is Roadrunner at the Los Alamos National Laboratory. Another interesting machine is the Apple iPad which uses very low power System on a Chip/Package on Package technologies. This talk explores the question of “what happens when you cross Roadrunner with iPads”? The result is a high level of integration between computation and storage on a single server blade, called a Flashblade, with 100x-1,000x performance improvements for some data-centric applications. The Flashblade architecture, expected performance, programming, and scaling with advancing technology are discussed.

(PDF)

Cell Image Analysis as a Basis for Understanding Plant Growth

Bioimage Informatics 2010, September 17-19, 2010, Pittsburgh, Pennsylvania, USA.

Alexandre Cunha, Adrienne Roeder, Bruce Shapiro, Paul Tarr, Cory Tobin, Elliot Meyerowitz

Segmenting the Sepal and Shoot Apical Meristem of Arabidopsis Thaliana

32nd Annual International IEEE Engineering in Medicine and Biology Conference, August 31 – September 4, 2010, Buenos Aires, Argentina.

Alexandre Cunha, Adrienne H.K. Roeder, Elliot M. Meyerowitz

A (Hypothetical) Data to Discovery Engine

AstroInformatics 2010
Caltech, June 16-19, 2010

Mark Stalzer

High performance computing systems are typically constructed from easily available parts, just organized differently and scaled to process extreme workloads. The most power efficient petascale machine as of 2010 is Roadrunner at the Los Alamos National Laboratory. Another interesting machine is the Apple iPad which uses very low power System on a Chip/Package on Package technologies. This talk explores the question of “what happens when you cross Roadrunner with iPads”?

(PDF)

Parallel Denoising

In SIAM Conference on Imaging Science, Chicago, Illinois, April 12-14, 2010.

Alexandre Cunha, Jerome Darbon.

Nonlinear Image Restoration

Novel Approaches to Bioimaging, Janelia Farm/HHMI, May 2-5, 2010

Alexandre Cunha

In vivo Bioimaging Analysis for Simulating Plant Growth Regulation

In SIAM Conference on Life Sciences. Pittsburgh, Pennsylvania, July 12-15, 2010

A. Cunha, A. Roeder, P. Tarr, C. Tobin, V. Chickarmane, E. Meyerowitz.