TYSON: Robust searching, sorting, and selecting of single particles in electron micrographs

Journal of Structural Biology

Volumn 145, Issue 1-2, 2004, Pages 76-83

  Plaisier, J R ^a   Koning, R I ^b   Koerten, H K ^b   Van Heel, M ^c   Abrahams, J P ^a  

^a LEIDEN UNIVERSITY   (Netherlands)

^b LEIDEN UNIVERSITY MEDICAL CENTER   (Netherlands)

^c IMPERIAL COLLEGE LONDON   (United Kingdom)

Author keywords

Automatic particle selection; Automation; Cryo EM; Single particles

Indexed keywords

AUTOMATION; CONFERENCE PAPER; ELECTRON MICROSCOPY; PARTICULATE MATTER; PRIORITY JOURNAL; PROBABILITY;

EID: 0347355579     PISSN: 10478477     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jsb.2003.09.030     Document Type: Conference Paper

References (22)

1. 1 ATPase Acta Cryst. D. 52:1996;30-42.
2. Finn R.D., Orlova E.V., Gowen B., Buck M., van Heel M. Escherichia coli RNA polymerase core and holoenzyme structures. EMBO J. 19:2000;6833-6844.
3. Frank J., Wagenknecht T. Automatic selection of molecular images from electron micrographs. Ultramicroscopy. 12:1984;169-175.
4. Frigo M., Johnson S.G. FFTW: an adaptive software architecture for the FFT. ICASSP Conf. Proc. 3:1998;1381-1384.
5. Glaeser R.M. Review: electron crystallography: present excitement, a nod to the past, anticipating the future. J. Struct. Biol. 128:1999;3-14.
6. Golmohammadi R., Valegård K., Fridborg K., Liljas L. The refined structure of bacteriophage MS2 at 2.8Å resolution. J. Mol. Biol. 234:1993;620-639.
7. Harauz G., Fong-Lochovsky A. Automatic selection of macromolecules from electron micrographs by component labelling and symbolic processing. Ultramicroscopy. 31:1989;333-344.
8. Henderson R. The potential and limitations of neutrons, electrons and X-rays for atomic-resolution microscopy of unstained biological molecules. Q. Rev. Biophys. 18:1995;171-193.
9. Kivioja T., Ravantti J., Verkhovsky A., Ukkonen E., Bamford D. Local average intensity-based method for identifying spherical particles in electron micrographs. J. Struct. Biol. 131:2000;126-134.
10. Koning R., van den Worm S., Plaisier J.R., van Duin J., Abrahams J.P., Koerten H. Visualization by cryo-EM of genomic RNA that binds to the protein capsid inside bacteriophage MS2. J. Biol. Chem. 332:2003;415-422.
11. Lata K.R., Penczek P., Frank J. Automatic particle picking from electron micrographs. Ultramicroscopy. 58:1995;381-391.
12. Ludtke S.J., Baldwin P.R., Chiu W. EMAN: semiautomated software for high-resolution single-particle reconstructions. J. Struct. Biol. 128:1999;82-97.
13. Nicholson W.V., Glaeser R.M. Review: automatic particle detection in electron microscopy. J. Struct. Biol. 133:2001;90-101.
14. Ogura T., Sato C. An automatic particle pickup method using a neural network applicable to low-contrast electron micrographs. J. Struct. Biol. 136:2001;227-238.
15. Roseman A.M. Particle finding in electron micrographs using a fast local correlation algorithm. Ultramicroscopy. 94:2003;225-236.
16. Saxton W.O., Frank J. Motif detection in quantum-noise limited electron micrographs by cross correlation. Ultramicroscopy. 2:1977;219-227.
17. Stoschek A., Hegerl R. Automated detection of macromolecules from electron micrographs using advanced filter techniques. J. Microsc. 185:1997;76-84.
18. Thuman-Commike P., Chiu W. Automatic detection of spherical particles from spot-scan electron microscopy images. J. Microsc. Soc. Am. 1:1995;191-201.
19. van Heel M. Detection of objects in quantum-noise-limited images. Ultramicroscopy. 7:1982;331-341.
20. van Heel M., Harauz G., Orlova E.V., Schmidt R., Schatz M. A new generation of the IMAGIC image processing system. J. Struct. Biol. 116:1996;17-24.
21. van Heel M., Gowen B., Matadeen R., Orlova E.V., Finn R., Pape T., Cohen D., Stark H., Schmidt R., Schatz M., Patwardhan A. Single-particle electron cryo-microscopy: towards atomic resolution. Q. Rev. Biophys. 33:2000;307-369.
22. van Heel, M., Schatz, M., 2003, Manuscript in preparation.