Detection and identification of macromolecular complexes in cryo-electron tomograms using support vector machines

Proceedings - International Symposium on Biomedical Imaging

Volumn , Issue , 2012, Pages 1373-1376

  Chen, Yuxiang ^a,b   Hrabe, Thomas ^a   Pfeffer, Stefan ^a   Pauly, Olivier ^b,c   Mateus, Diana ^b,c   Navab, Nassir ^b   Förster, Friedrich ^a  

^a MAX PLANCK INSTITUTE OF BIOCHEMISTRY   (Germany)

^b TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^c INSTITUTE OF EPIDEMIOLOGY   (Germany)

Author keywords

Cryo electron tomography; spherical harmonics; support vector machines; template matching

Indexed keywords

CORRELATION COEFFICIENT; CRYO-ELECTRON TOMOGRAPHY; FINAL DECISION; LOW SIGNAL-TO-NOISE RATIO; MACROMOLECULAR COMPLEXES; ROTATION INVARIANT FEATURES; SPHERICAL HARMONICS; STATE-OF-THE-ART METHODS;

ELECTRIC IMPEDANCE TOMOGRAPHY; HARMONIC ANALYSIS; MACROMOLECULES; MEDICAL IMAGING; TEMPLATE MATCHING;

SUPPORT VECTOR MACHINES;

EID: 84864833729     PISSN: 19457928     EISSN: 19458452     Source Type: Conference Proceeding    
DOI: 10.1109/ISBI.2012.6235823     Document Type: Conference Paper

References (10)

1. V. Lucic, F. Förster, and W. Baumeister, "Structural studies by electron tomography: from cells to molecules," Annu. Rev. Biochem., vol. 74, pp. 833-865, 2005.
2. S. Nickell, C. Kofler, A. P. Leis, and W. Baumeister, "A visual approach to proteomics," Nature Rev. Mol. Cell Biol., vol. 7, pp. 225-230, 2006.
3. A. Bartesaghi and S. Subramaniam, "Membrane protein structure determination using cryo-electron tomography and 3D image averaging," Curr. Opinion Struct. Biol., vol. 19, pp. 402-407, 2009.
4. A. S. Frangakis et al., "Identification of macromolecular complexes in cryoelectron tomograms of phantom cells.," Proc. Natl. Acad. Sci. USA, vol. 99, pp. 14153-8, 2002.
5. A. M. Roseman, "Particle finding in electron micrographs using a fast local correlation algorithm.," Ultramicroscopy, vol. 94, pp. 225-36, 2003.
6. Y. Zhu et al., "Automatic particle selection: results of a comparative study," J. Struct. Biol., vol. 145, pp. 3-14, 2004.
7. M. Kazhdan, T. Funkhouser, and S. Rusinkiewicz, "Rotation invariant spherical harmonic representation of 3D shape descriptors," Symposium on Geometry Processing, pp. 167-175, 2003.
8. M. Beck, J. A. Malmström, V. Lange, A. Schmidt, E. W. Deutsch, and R. Aebersold, "Visual proteomics of the human pathogen Leptospira interrogans," Nature Methods, vol. 6, pp. 817-823, 2009.
9. C.-C. Chang and C.-J. Lin, "LIBSVM: A library for support vector machines," ACM Transactions on Intelligent Systems and Technology, vol. 2, pp. 27:1-27:27, 2011.
10. Thomas Hrabe, Yuxiang Chen, Stefan Pfeffer, Luis Kuhn Cuellar, Ann-Victoria Mangold, Friedrich Förster, "PyTom: A python-based toolbox for localization of macromolecules in cryo-electron tomograms and subtomogram analysis," J. Struct. Biol., 2011