All Depositions

Deposition

CZII CryoET Object Identification Challenge - 1st place solution - Daddies

  • Deposition ID:CZCDP-10319

Release Date: 2025-02-25

Last Modified: 2025-02-25

key visualization for CZII CryoET Object Identification Challenge - 1st place solution - Daddies

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

Deposition Overview

The 1st place solution employs an ensemble approach combining segmentation models (3D UNets with ResNet & B3 encoders) and object detection models (SegResNet and DynUnet backbones) from MONAI. Segmentation uses weighted CrossEntropy loss (256:1 positive:negative weighting), while detection implements a modified PP-Yolo loss with IoU-based point-point similarity metrics. Models are trained on 96×96×96 patches with inference on larger volumes, and both approaches are merged through a novel scaling technique that aligns feature map distributions before object detection post-processing. Performance is optimized by converting models to TensorRT, achieving a 200% speedup and enabling parallel inference on two T4 GPUs.

Authors

  • Christof Henkel
    ,
  • Eugene Khvedchenya

Deposition Data

Annotations:2,716

Publications

Not Submitted

Related Databases

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Methods Summary

Annotations
Method Type
Method Details
Method Links
2716
Automated
Ensemble of segmentation and detection networks with feature distribution alignment scaling.
Source Code:Inference kernel on Kaggle
+4 more

Deposited Data

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Data Contents

Tilt SeriesAvailable
FramesAvailable
CTFAvailable
AlignmentAvailable

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2,716 of 2,716 Annotations

Annotation Name
Object Shape Type
Method Type
Deposited In

111virus-like capsid

Annotation ID: AN-97116

Point
Automated

110Thyroglobulin

Annotation ID: AN-97115

Point
Automated

109cytosolic ribosome

Annotation ID: AN-97114

Point
Automated

108Beta-galactosidase

Annotation ID: AN-97113

Point
Automated

107ferritin complex

Annotation ID: AN-97112

Point
Automated

111virus-like capsid

Annotation ID: AN-97058

Point
Automated

110Thyroglobulin

Annotation ID: AN-97057

Point
Automated

109cytosolic ribosome

Annotation ID: AN-97056

Point
Automated

108Beta-galactosidase

Annotation ID: AN-97055

Point
Automated

107Beta-amylase

Annotation ID: AN-97054

Point
Automated

106ferritin complex

Annotation ID: AN-97053

Point
Automated

108virus-like capsid

Annotation ID: AN-97000

Point
Automated

107Thyroglobulin

Annotation ID: AN-96999

Point
Automated

106cytosolic ribosome

Annotation ID: AN-96998

Point
Automated

105Beta-galactosidase

Annotation ID: AN-96997

Point
Automated

104ferritin complex

Annotation ID: AN-96996

Point
Automated

110virus-like capsid

Annotation ID: AN-96945

Point
Automated

109Thyroglobulin

Annotation ID: AN-96944

Point
Automated

108cytosolic ribosome

Annotation ID: AN-96943

Point
Automated

107Beta-galactosidase

Annotation ID: AN-96942

Point
Automated
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