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Accelerating Discovery in 3D Microanalysis: Leveraging Open Source Software and Deskside High Performance Computing

Published online by Cambridge University Press:  27 August 2014

Terry S. Yoo
Affiliation:
Office of High Performance Computing and Communications, National Library of Medicine, U.S. National Institutes of Health, Bethesda, Maryland, USA
Bradley C. Lowekamp
Affiliation:
Office of High Performance Computing and Communications, National Library of Medicine, U.S. National Institutes of Health, Bethesda, Maryland, USA
Oleg Kuybeda
Affiliation:
Office of High Performance Computing and Communications, National Library of Medicine, U.S. National Institutes of Health, Bethesda, Maryland, USA
Kedar Narayan
Affiliation:
Laboratory of Cell Biology, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
Gabriel A. Frank
Affiliation:
Laboratory of Cell Biology, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
Alberto Bartesaghi
Affiliation:
Laboratory of Cell Biology, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
Mario Borgnia
Affiliation:
Laboratory of Cell Biology, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
Sriram Subramaniam
Affiliation:
Laboratory of Cell Biology, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
Guillermo Sapiro
Affiliation:
Electrical and Computer Engineering, Duke University, Durham, NC, USA
Michael J. Ackerman
Affiliation:
Office of High Performance Computing and Communications, National Library of Medicine, U.S. National Institutes of Health, Bethesda, Maryland, USA
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Abstract

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Copyright
Copyright © Microscopy Society of America 2014 

References

[1] Yoo, TS, et al, Visualizing cells and humans in 3D: biomedical image analysis at nanometer and meter scales. IEEE Computer Graphics and Applications, 32(5) (Sep-Oct 2012), 39-49.CrossRef
[2] Kuybeda, O, et al., A collaborative framework for 3D alignment and classification of heterogeneous subvolumes in cryo-electron tomography, Journal of Structural Biology, 181(2) (2013), Academic Press, pp. 116-127.CrossRef
[3] Federov, A, et al, 3DSlicer as an image computing platform for the quantitative imaging network, Magnetic Resonance Imaging, 30 (2012), DOI: 10.1016/j.mri.2012.05.001, pp. 1323-1341.CrossRef
[4] Lowekamp, BC, Chen, DT, Ibanez, L, Blezek, D The design of SimplelITK, Frontiers in Neuroinformatics, 7(45) (2013), DOI: 10.3389/fninf.2013.00045, pp. 1-14.CrossRef
[5] SimpleITK was funded in part under the American Reinvestment and Recovery Act (ARRA) by NLM contract awards HHSN276201000488P and HHSN276201000490P. 3DSlicer is freely available from the National Alliance for Medical Image Computing (NA-MIC).CrossRef

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