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An efficient method for computing steady state solutions with Gillespie’s direct method
J. Chem. Phys. 133, 144108 (2010); doi:10.1063/1.3489354 (7 pages)
S. Mauch and M. Stalzer
(Abstract)
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A Dynamic Model of Interactions of Ca2+, Calmodulin, and Catalytic Subunits of Ca2+/Calmodulin-Dependent Protein Kinase I
PLoS Computational Biology 6(2): e1000675. doi:10.1371/journal.pcbi.1000675 (2010)
Shirley Pepke, Tamara Kinzer-Ursem, Stefan Mihalas, Mary B. Kennedy
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Enabling Computational Plant Development: From Confocal Images to Finite Element Simulations
In Computational Methods in Image Analysis, 10th US National Congress of Computational Mechanics, Columbus, Ohio, USA, July 16 – 19 2009.
Alexandre Cunha
(PDF)
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Computational Morphodynamics: A modeling framework to understand plant growth
Annual Review of Plant Biology. Volume 61, Page 65-87, 2010
Vijay Chickarmane, Adrienne H.K Roeder, Paul T Tarr, Alexandre Cunha, Cory Tobin, Elliot M Meyerowitz.
(Article)
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Computation for Chip-seq and RNA-seq studies
Nature Methods 6, S22-S32,15 October 2009.
Shirley Pepke, Barbara Wold, and Ali Mortazavi
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Fast Nonlocal Means Denoising of cryoEM Images
Asia-Pacific Congress on Electron Tomography, Brisbane, Australia, Jan 31 – Feb 4, 2009.
Alexandre Cunha, Jerome Darbon, Grant Jensen.
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Computational Morphogenesis. Tools for Simulating Cell Growth and Division in Arabidopsis thaliana
In: Bioimage Informatics Conference, Janelia Farm Research Campus, Howard Hughes Medical Institute, Chevy Chase, Maryland, April 5-8, 2009.
Alexandre Cunha, Adrienne Roeder, Marcus Heisler, Eric Mjolsness, Elliot Meyerowitz.
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Efficient Formulations for Exact Stochastic Simulation of Chemical Systems
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 30 April 2009
Sean Mauch and Mark Stalzer
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Timing of endoreduplication controls cell size
FASEB Conference 2008.
Adrienne H. K. Roeder, Vijay S. Chickarmane, Michael C. Burl, Alexandre Cunha, Aida Sun, Lisa Yee, Carolyn Ohno, and Elliot M. Meyerowitz.
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Mathematics of Electron Microscope Tomography
In Electron Microscope Tomography, Three Dimensional Reconstruction and Data Analysis, Minisymposium, SIAM Annual Meeting, San Diego, California, July 7-11, 2008.
Albert Lawrence, Alexandre Cunha, Sebastien Phan.