Manual organelle segmentations (crop202) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of (jrc_sum159-4)

Name: Manual organelle segmentations (crop202) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of (jrc_sum159-4)
Creator: Janelia Research Campus
Published: 2024-12-17 19:24:53
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DataCite Commons2024-12-17 更新2025-04-16 收录

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https://janelia.figshare.com/articles/dataset/Manual_organelle_segmentations_crop202_in_near-isotropic_reconstructed_volume_electron_microscopy_FIB-SEM_of_jrc_sum159-4_/24255982/1

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This acquisition is part of the CellMap 2024 Segmentation Challenge - Challenge DOI: https://doi.org/10.25378/janelia.c.7456966 - Challenge Website: https://cellmapchallenge.janelia.org/ Annotation description: Dense segmentations of extracellular space, plasma membrane, mitochondrial membrane, mitochondrial lumen, endosome membrane, endoplasmic reticulum lumen, endoplasmic reticulum membrane, endosome lumen, microtubule out, microtubule in, cytosol, endosome, mitochondria, endoplasmic reticulum, microtubule, cell, endoplasmic reticulum membrane collective in jrc_sum159-4 using Amira 3D 2021.1, Classic Segmentation Workroom and the 'Using Amira to manually segment organelles in vEM for machine learning V.3' annotation protocol. Annotation ID: crop202 Primary Annotator: Woohyun Park Annotation protocol: Using Amira to manually segment organelles in vEM for machine learning V.3 (http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3) Software: Amira 3D 2021.1, Classic Segmentation Workroom Annotated voxel size (nm): 4 x 4 x 4 (x, y, z) Annotated data dimensions (µm): 1.6 x 1.6 x 1.6 (x, y, z) Annotated data offset (nm): 32840 x 5760 x 18464 (x, y, z) Classes annotated: extracellular space, plasma membrane, mitochondrial membrane, mitochondrial lumen, endosome membrane, endoplasmic reticulum lumen, endoplasmic reticulum membrane, endosome lumen, microtubule out, microtubule in, cytosol, endosome, mitochondria, endoplasmic reticulum, microtubule, cell, endoplasmic reticulum membrane collective Dataset URL: s3://janelia-cosem-datasets/jrc_sum159-4/jrc_sum159-4.zarr/recon-1/labels/groundtruth/crop202 Source (EM) dataset ID: jrc_sum159-4 Source (EM) voxel size (nm): 8 x 8 x 8 (x, y, z) Source (EM) data dimensions (µm): 95 x 8.5 x 47.8 (x, y, z) Source (EM) DOI: https://doi.org/10.25378/janelia.20134103 Visualization website: https://openorganelle.janelia.org/datasets/jrc_sum159-4 Publication: CellMap Segmentation Challenge, 2024. The CellMap Project Team during this time consisted of: David Ackerman, Davis Bennett, Marley Bryant, Hannah Nguyen, Grace Park, Alyson Petruncio, Alannah Post, Jacquelyn Price, Diana Ramirez, Jeff Rhoades, Rebecca Vorimo, Aubrey Weigel, Marwan Zouinkhi, Yurii Zubov. The CellMap Project Team Steering Committee during this time consisted of: Misha Ahrens, Christopher Beck, Teng-Leong Chew, Daniel Feliciano, Jan Funke, Harald Hess, Wyatt Korff, Jennifer Lippincott-Schwartz, Zhe J. Liu, Kayvon Pedram, Stephan Preibisch, Stephan Saalfeld, Ronald Vale, and Aubrey Weigel.

提供机构：

Janelia Research Campus

创建时间：

2024-12-13