Deposition

Expert-in-the-loop guided automatic segmentations of cells and cellular structures using SABER

Deposition ID:CZCDP-10331

Release Date: 2025-05-22

Last Modified: 2025-05-22

key visualization for Expert-in-the-loop guided automatic segmentations of cells and cellular structures using SABER

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

Deposition Overview

This deposition contains segmentations of whole cells, lysosomes and components of bacterial cells. The segmentations were generated using the SABER package, which is a SAM2-based segmentation framework that uses an expert-in-the-loop approach to refine segmentations based on the embedding space of SAM2. Segmentations are provided as semantic masks, with a point at the center of mask indicating object instances. Authors are redacted pending peer review process.

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Anonymous Author

Deposition Data

Annotations:803

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Methods Summary

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1,460 of 1,460 Annotations

Annotation Name	Object Shape Type	Method Type	Deposited In
103inclusion body Annotation ID: AN-97997	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-99
103inclusion body Annotation ID: AN-97997	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-99
102intracellular anatomical structure Annotation ID: AN-97996	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-99
102intracellular anatomical structure Annotation ID: AN-97996	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-99
102intracellular anatomical structure Annotation ID: AN-97995	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-98
102intracellular anatomical structure Annotation ID: AN-97995	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-98
102inclusion body Annotation ID: AN-97994	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-97
102inclusion body Annotation ID: AN-97994	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-97
103inclusion body Annotation ID: AN-97993	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-96
103inclusion body Annotation ID: AN-97993	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-96
102intracellular anatomical structure Annotation ID: AN-97992	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-96
102intracellular anatomical structure Annotation ID: AN-97992	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-96
102intracellular anatomical structure Annotation ID: AN-97991	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-95
102intracellular anatomical structure Annotation ID: AN-97991	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-95
102intracellular anatomical structure Annotation ID: AN-97990	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-94
102intracellular anatomical structure Annotation ID: AN-97990	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-94
103inclusion body Annotation ID: AN-97989	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-9
103inclusion body Annotation ID: AN-97989	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-9
102intracellular anatomical structure Annotation ID: AN-97988	SegmentationMask	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-9
102intracellular anatomical structure Annotation ID: AN-97988	InstanceSegmentation	Automated	Dataset: L. pneumophila JV9114 Run: dga2017-07-08-9