Subtomogram alignment by adaptive Fourier coefficient thresholding.

Journal of Structural Biology
Fernando AmatMark Horowitz

Abstract

In the past few years, three-dimensional (3D) subtomogram alignment has become an important tool in cryo-electron tomography (CET). This technique allows one to produce higher resolution images of structures which can not be reconstructed using single-particle methods. Building on previous work, we present a new dissimilarity measure between subtomograms that works well for the noisy images that often occur in CET images. A technique that is more robust to noise provides the ability to analyze macromolecules in thicker samples such as whole cells or lower the defocus in thinner samples to push the first zero of the Contrast Transfer Function (CTF). Our method, Threshold Constrained Cross-Correlation (TCCC), uses statistics of the noise to automatically select only a small percentage of the Fourier coefficients to compute the cross-correlation, which has two main advantages: first, it reduces the influence of the noise by looking at only those peaks dominated by signal; and second, it avoids the missing wedge normalization problem since we consider the same number of coefficients for all possible pairs of subtomograms. We present results with synthetic and real data to compare our approach with other existing methods under diffe...Continue Reading

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Citations

Sep 14, 2010·Journal of Bacteriology·Fernando AmatMark Horowitz
Mar 26, 2013·Journal of Structural Biology·Yuxiang ChenFriedrich Förster
Jun 5, 2012·Micron : the International Research and Review Journal for Microscopy·Jose-Jesus Fernandez
Mar 27, 2016·Journal of Structural Biology·Jesús G Galaz-MontoyaWah Chiu
Nov 12, 2013·Journal of Structural Biology·Chyongere HsiehMichael Marko
Sep 3, 2013·Journal of Structural Biology·Maxim ShatskySteven E Brenner
Nov 8, 2011·Journal of Structural Biology·Mikhail KudryashevDaniel Castaño-Díez
Feb 11, 2015·Journal of Structural Biology·Beata TuroňováPhilipp Slusallek
Aug 7, 2017·Biophysical Reports·Jesús G Galaz-Montoya, Steven J Ludtke

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