• Corpus ID: 246210385

SparseAlign: A Super-Resolution Algorithm for Automatic Marker Localization and Deformation Estimation in Cryo-Electron Tomography

@article{Ganguly2022SparseAlignAS,
  title={SparseAlign: A Super-Resolution Algorithm for Automatic Marker Localization and Deformation Estimation in Cryo-Electron Tomography},
  author={Poulami Somanya Ganguly and Felix Lucka and Holger Kohr and Erik Franken and Hermen Jan Hupkes and Kees Joost Batenburg},
  journal={ArXiv},
  year={2022},
  volume={abs/2201.08706}
}
Tilt-series alignment is crucial to obtaining highresolution reconstructions in cryo-electron tomography. Beaminduced local deformation of the sample is hard to estimate from the low-contrast sample alone, and often requires fiducial gold bead markers. The state-of-the-art approach for deformation estimation uses (semi-)manually labelled marker locations in projection data to fit the parameters of a polynomial deformation model. Manually-labelled marker locations are difficult to obtain when… 

Figures from this paper

References

SHOWING 1-10 OF 28 REFERENCES
Atomic Super-Resolution Tomography
TLDR
A grid-free discrete tomography algorithm that allows for continuous deviations of the atom locations similar to super-resolution approaches for microscopy is proposed and allowed to define atomic interaction potentials explicitly, which results in a both meaningful and powerful incorporation of the available physical a priori knowledge about the crystal's properties.
Current data processing strategies for cryo-electron tomography and subtomogram averaging
TLDR
In recent years, cryo-ET with STA has increasingly been capable of reaching subnanometer resolution due to improvements in microscope hardware and data processing strategies and there has been an increase in the number and quality of software packages available to process cryo -ET data with STA.
Advances in cryo-electron tomography for biology and medicine.
  • R. Koning, A. Koster, T. Sharp
  • Biology
    Annals of anatomy = Anatomischer Anzeiger : official organ of the Anatomische Gesellschaft
  • 2018
Dynamic Spike Super-resolution and Applications to Ultrafast Ultrasound Imaging
TLDR
This paper proposes a fully dynamical method based on a phase-space lifting of the positions and the velocities of the particles, which are simultaneously reconstructed with super-resolution and discusses the application of this approach to the dynamical super- resolution problem in ultrafast ultrasound imaging.
A complete data processing workflow for CryoET and subtomogram averaging
TLDR
An integrated pipeline for processing cryo-ET data implemented in EMAN2 streamlines data processing to minimize human bias, and improves the quality and resolution of resulting macromolecular structures, both in vitro and in cells.
Image formation modeling in cryo-electron microscopy.
Simulation of transmission electron microscope images of biological specimens
TLDR
The simulator has been designed to provide a platform for development of new instrumentation and image processing procedures in single particle electron microscopy, two‐dimensional crystallography and electron tomography with well documented protocols and an open source code into which new improvements and extensions are easily incorporated.
Parametric Image Alignment Using Enhanced Correlation Coefficient Maximization
  • Georgios D. Evangelidis, E. Psarakis
  • Computer Science
    IEEE Transactions on Pattern Analysis and Machine Intelligence
  • 2008
TLDR
This work proposes the use of a modified version of the correlation coefficient as a performance criterion for the image alignment problem and proposes an efficient approximation that leads to a closed form solution which is of low computational complexity.
...
...