Deposition

CZII CryoET Object Identification Challenge - 2nd place solution - LuoZiqian&Lion

Deposition ID:CZCDP-10320

Release Date: 2025-02-25

Last Modified: 2025-02-25

key visualization for CZII CryoET Object Identification Challenge - 2nd place solution - LuoZiqian&Lion

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

Deposition Overview

The 2nd place solution employs an ensemble of multiple lightweight segmentation models with parameter sizes ranging from 873K to 14.2M, including architectures such as UNet3D, VoxResNet, VoxHRNet, SegResNet, DenseVNet, and UNet2E3D. The models are trained using Tversky Loss, Dice Loss, and Cross-Entropy Loss with customized mask radii for each particle type, utilizing InstanceNorm3d and PReLU for enhanced training stability. After segmentation, particle centroids are computed using CC3D and filtered based on voxel count statistics, with an ensemble strategy involving averaging of 7 to 10 complementary models and test-time augmentation.

Authors

Ziqian Luo
,
Shuo Wang

Deposition Data

Annotations:2,412

Publications

Not Submitted

Related Databases

Not Submitted

Methods Summary

Annotations	Method Type	Method Details	Method Links
2412	Automated	Segmentation models with stable normalization and extensive model ensembling.	Source Code:Lion's Training Code +3 more

Deposited Data

Group by

Data Contents

Tilt SeriesAvailable

FramesAvailable

CTFAvailable

AlignmentAvailable

Filter by:

2,412 of 2,412 Annotations

Annotation Name	Object Shape Type	Method Type	Deposited In
115virus-like capsid Annotation ID: AN-97762	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_3
114Thyroglobulin Annotation ID: AN-97761	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_3
113cytosolic ribosome Annotation ID: AN-97760	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_3
112Beta-galactosidase Annotation ID: AN-97759	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_3
111ferritin complex Annotation ID: AN-97758	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_3
116virus-like capsid Annotation ID: AN-97712	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_2
115Thyroglobulin Annotation ID: AN-97711	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_2
114cytosolic ribosome Annotation ID: AN-97710	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_2
113Beta-galactosidase Annotation ID: AN-97709	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_2
112ferritin complex Annotation ID: AN-97708	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_9_2
115virus-like capsid Annotation ID: AN-97660	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_4
114Thyroglobulin Annotation ID: AN-97659	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_4
113cytosolic ribosome Annotation ID: AN-97658	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_4
112Beta-galactosidase Annotation ID: AN-97657	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_4
111ferritin complex Annotation ID: AN-97656	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_4
117virus-like capsid Annotation ID: AN-97609	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_1
116Thyroglobulin Annotation ID: AN-97608	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_1
115cytosolic ribosome Annotation ID: AN-97607	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_1
114Beta-galactosidase Annotation ID: AN-97606	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_1
113ferritin complex Annotation ID: AN-97605	Point	Automated	Dataset: CZII - CryoET Object Identification Challenge - Public Test Dataset Run: TS_98_1