AuTom-dualx: a toolkit for fully automatic fiducial marker-based alignment of dual-axis tilt series with simultaneous reconstruction

Bioinformatics
Renmin HanFa Zhang

Abstract

Dual-axis electron tomography is an important 3D macro-molecular structure reconstruction technology, which can reduce artifacts and suppress the effect of missing wedge. However, the fully automatic data process for dual-axis electron tomography still remains a challenge due to three difficulties: (i) how to track the mass of fiducial markers automatically; (ii) how to integrate the information from the two different tilt series; and (iii) how to cope with the inconsistency between the two different tilt series. Here we develop a toolkit for fully automatic alignment of dual-axis electron tomography, with a simultaneous reconstruction procedure. The proposed toolkit and its workflow carries out the following solutions: (i) fully automatic detection and tracking of fiducial markers under large-field datasets; (ii) automatic combination of two different tilt series and global calibration of projection parameters; and (iii) inconsistency correction based on distortion correction parameters and the consequently simultaneous reconstruction. With all of these features, the presented toolkit can achieve accurate alignment and reconstruction simultaneously and conveniently under a single global coordinate system. The toolkit AuTom-dualx (a...Continue Reading

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Citations

Dec 4, 2019·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Zihao WangFa Zhang

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Datasets Mentioned

BETA
EMPIAR-10064

Methods Mentioned

BETA
electron tomography

Software Mentioned

SIRT
AuTom
SART
IMOD
Centriole
FSC
dualxmauto
Simul
InSilicoTEM
Resmap

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An antifungal, also known as an antimycotic medication, is a pharmaceutical fungicide or fungistatic used to treat and prevent mycosis such as athlete's foot, ringworm, candidiasis, cryptococcal meningitis, and others. Discover the latest research on antifungals here.