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Deposition

CZII CryoET Object Identification Challenge - 5th place solution - Youssef Ouertani

  • Deposition ID:CZCDP-10323

Release Date: 2025-02-25

Last Modified: 2025-02-25

key visualization for CZII CryoET Object Identification Challenge - 5th place solution - Youssef Ouertani

Photo Caption: Central slab of 4 representative tomograms with selected sets of annotations.

Deposition Overview

The 5th place solution employs a compact DeepFinder-like 3D neural network with a 3D batch normalization layer at the input and reduced channel counts for particle detection in cryoET data. The model is trained using label smoothingcross-entropy loss with smoothing factor of 0.01, with binary masks created using customized particle radius factors of 0.5 or less. The inference pipeline splits volumes into patches with minimal overlap, applies 6-way test-time augmentation (3 flips and 3 rotations), and uses connected components analysis with area-based filtering for post-processing.

Authors

  • Youssef Ouertani

Deposition Data

Annotations:2,371

Publications

Not Submitted

Related Databases

Not Submitted

Methods Summary

Annotations
Method Type
Method Details
Method Links
2371
Automated
Compact DeepFinder-inspired 3D-CNN with optimized cross-entropy and TTA.

Deposited Data

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Data Contents

Tilt SeriesAvailable
FramesAvailable
CTFAvailable
AlignmentAvailable

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2,371 of 2,371 Annotations

Annotation Name
Object Shape Type
Method Type
Deposited In

131virus-like capsid

Annotation ID: AN-97136

Point
Automated

130Thyroglobulin

Annotation ID: AN-97135

Point
Automated

129cytosolic ribosome

Annotation ID: AN-97134

Point
Automated

128Beta-galactosidase

Annotation ID: AN-97133

Point
Automated

127ferritin complex

Annotation ID: AN-97132

Point
Automated

131virus-like capsid

Annotation ID: AN-97078

Point
Automated

130Thyroglobulin

Annotation ID: AN-97077

Point
Automated

129cytosolic ribosome

Annotation ID: AN-97076

Point
Automated

128Beta-galactosidase

Annotation ID: AN-97075

Point
Automated

127ferritin complex

Annotation ID: AN-97074

Point
Automated

128virus-like capsid

Annotation ID: AN-97020

Point
Automated

127Thyroglobulin

Annotation ID: AN-97019

Point
Automated

126cytosolic ribosome

Annotation ID: AN-97018

Point
Automated

125Beta-galactosidase

Annotation ID: AN-97017

Point
Automated

124ferritin complex

Annotation ID: AN-97016

Point
Automated

130virus-like capsid

Annotation ID: AN-96965

Point
Automated

129Thyroglobulin

Annotation ID: AN-96964

Point
Automated

128cytosolic ribosome

Annotation ID: AN-96963

Point
Automated

127Beta-galactosidase

Annotation ID: AN-96962

Point
Automated

126ferritin complex

Annotation ID: AN-96961

Point
Automated
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