Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

Fast automatic particle picking from cryo-electron micrographs using a locally normalized cross-correlation function:

B K Rath1, J Frank

  • 1Wadsworth Center, Health Research, Inc., Empire State Plaza, Albany, NY 12201-0509, USA.

Journal of Structural Biology
|April 7, 2004
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Simultaneous manifestation of variegate porphyria in monozygotic twins.

The British journal of dermatology·2008
Same author

[Diagnostic image (365). A man with facial hyperpigmentation].

Nederlands tijdschrift voor geneeskunde·2008
Same author

Regulation of adhesion molecule expression in human endothelial and smooth muscle cells by omega-3 fatty acids and conjugated linoleic acids: involvement of the transcription factor NF-kappaB?

Prostaglandins, leukotrienes, and essential fatty acids·2007
Same author

Vertebral artery dissection with amphetamine abuse.

Journal of stroke and cerebrovascular diseases : the official journal of National Stroke Association·2007
Same author

The histochemical profile of the rat extensor digitorum longus muscle differentiates after birth and dedifferentiates in senescence.

European journal of histochemistry : EJH·2007
Same author

Molecular heterogeneity of familial porphyria cutanea tarda in Spain: characterization of 10 novel mutations in the UROD gene.

The British journal of dermatology·2007
Same journal

Ultrastructural evidence of autophagy-related processes and mitochondrial remodeling in the myxozoan parasite Henneguya piaractus.

Journal of structural biology·2026
Same journal

Architecture and dynamics of a supramolecular oxygen transport system in human homogentisate 1,2-Dioxygenase.

Journal of structural biology·2026
Same journal

Connecting pathways between mineralized fibrocartilage and bone at the Achilles tendon insertion.

Journal of structural biology·2026
Same journal

Structural and functional characterization of thermostable EstS1 esterase for BHET degradation.

Journal of structural biology·2026
Same journal

Following the white rabbit: multiscale 2D3D correlative imaging of bone structure.

Journal of structural biology·2026
Same journal

The mantis shrimp eye imaged in 3D using 4th generation synchrotron multiscale phase contrast tomography.

Journal of structural biology·2026
See all related articles

A new automated particle picking method in SPIDER significantly speeds up cryo-electron microscopy (cryo-EM) by efficiently identifying macromolecular structures like ribosomes, reducing manual effort.

Area of Science:

  • Structural Biology
  • Biophysics
  • Computational Biology

Background:

  • High-resolution macromolecular structure determination using cryo-electron microscopy (cryo-EM) relies on analyzing a large number of particles.
  • Manual particle picking from electron micrographs is a labor-intensive and time-consuming bottleneck in the cryo-EM workflow.
  • Automating particle selection is crucial for improving the efficiency and throughput of structure determination.

Purpose of the Study:

  • To develop and implement a fast, automated particle picking procedure within the SPIDER software environment.
  • To evaluate the efficiency and accuracy of the automated picking method for cryo-EM data.
  • To optimize search strategies for particle identification, considering different particle orientations.

Main Methods:

Related Experiment Videos

  • Implementation of a template matching algorithm utilizing a locally normalized correlation approach.
  • Application of Fourier techniques for efficient correlation calculation.
  • Testing the procedure on cryo-electron micrographs of 70S Escherichia coli ribosomes.
  • Exploration of various search strategies, including circular and asymmetric masks.

Main Results:

  • The automated procedure successfully picked 70S E. coli ribosomes from cryo-EM data.
  • The method achieved fully automatic picking with less than 10% false positives.
  • Approximately 15% of true positive particles were missed during the automated selection process.
  • Different masking strategies were evaluated for their impact on picking efficiency.

Conclusions:

  • The developed automated particle picking procedure offers a significant improvement over manual methods in cryo-EM.
  • The SPIDER-based tool provides an efficient and effective solution for processing large datasets.
  • This advancement facilitates higher resolution structure determination by streamlining a critical step in the cryo-EM workflow.