[3dem] How to determine a symmetry of a ring particle?

[Sharon G. Wolf]

I used Rotastat in the past.  It's very important to collect "background" data in the same quantity and imaging conditions that the images of the particles are taken.
Best,
Sharon

From: 3dem-bounces at ncmir.ucsd.edu [mailto:3dem-bounces at ncmir.ucsd.edu] On Behalf Of Bernard Heymann
Sent: Monday, 14 January, 2013 17:47
To: 3dem at ncmir.ucsd.edu
Subject: Re: [3dem] How to determine a symmetry of a ring particle?

Dear Alexander

Another alternative is the method used in:
Ultramicroscopy. 1995 Sep;60(2):219-28

It can handle polymorphism.

You can find the application here:
http://lsbr.niams.nih.gov/lsbr/RotaStat.html

Best

Bernard

--------------------------------------------------------------------------------------------------------------------
J. Bernard Heymann Ph.D.
LSBR/NIAMS/NIH
Rm 1515, 50 South Dr, NIH
Bethesda MD 20892-8025
Tel. 301-451-8241




On Jan 14, 2013, at 4:30 AM, Philip Köck <Philip.Koeck at ki.se<mailto:Philip.Koeck at ki.se>> wrote:


That's another good idea.
You might actually have eigen images already. They could be one of the outputs of the 2D classification
you did in Eman.
Look at Dube et al. to learn how to interpret the eigen images, if you find them.

From: 3dem-bounces at ncmir.ucsd.edu [mailto:3dem-bounces at ncmir.ucsd.edu] On Behalf Of michael
Sent: 14 January 2013 10:23
To: 3dem at ncmir.ucsd.edu
Subject: Re: [3dem] How to determine a symmetry of a ring particle?

Dear Alexander,

Dube et al. 1993 are using multivariate statistical analysis (MSA) to estimate the symmetry properties by looking at the eigenimages.

A description of the method can be found here: www.singleparticles.org/methodology<http://www.singleparticles.org/methodology> . You can download the PDF file "Multivariate Statistical Analysis in Single Particle (Cryo) Electron Microscopy". The related chapter is "12. MSA symmetry analysis".

The original paper is: Dube P, Tavares P, Lurz R and van Heel M EMBO J. (1993) 1303-1309.

I also want to refer to Pawel's hint: the method is a symmetry estimation and not a determination.

Regards
Michael


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