Manual organelle segmentations (crop230) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse kidney (jrc_mus-kidney)

This acquisition is part of the CellMap 2024 Segmentation Challenge
Challenge DOI: https://doi.org/10.25378/janelia.c.7456966Challenge Website: https://cellmapchallenge.janelia.org/Annotation description: Dense segmentations of nucleus, mitochondria in jrc_mus-kidney 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: crop230
Primary Annotator: Alyson Petruncio
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): 16 x 16 x 16 (x, y, z)
Annotated data dimensions (µm): 6.4 x 6.4 x 6.4 (x, y, z)
Annotated data offset (nm): 16868 x 29124 x 82724 (x, y, z)
Classes annotated: nucleus, mitochondria
Dataset URL: s3://janelia-cosem-datasets/jrc_mus-kidney/jrc_mus-kidney.zarr/recon-1/labels/groundtruth/crop230
Source (EM) dataset ID: jrc_mus-kidney
Source (EM) voxel size (nm): 8 x 8 x 8 (x, y, z)
Source (EM) data dimensions (µm): 98.3 x 63.81 x 177.59 (x, y, z)
Source (EM) DOI: https://doi.org/10.25378/janelia.16913035
Visualization website: https://openorganelle.janelia.org/datasets/jrc_mus-kidney
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.

本次采集属于CellMap 2024 分割挑战赛（CellMap 2024 Segmentation Challenge）范畴。
挑战赛DOI：https://doi.org/10.25378/janelia.c.7456966
挑战赛官网：https://cellmapchallenge.janelia.org/

注释说明：采用Amira 3D 2021.1、经典分割工作间（Classic Segmentation Workroom）以及《用于机器学习的体视电子显微镜（vEM, volume EM）中细胞器手动分割V.3》（Using Amira to manually segment organelles in vEM for machine learning V.3）注释协议，对jrc_mus-kidney样本中的细胞核、线粒体进行全密集分割。

注释ID：crop230
主要注释人员：Alyson Petruncio
注释协议：《用于机器学习的体视电子显微镜中细胞器手动分割V.3》（http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3）
所用软件：Amira 3D 2021.1、经典分割工作间
标注体素尺寸（纳米）：16×16×16（x、y、z轴）
标注数据尺寸（微米）：6.4×6.4×6.4（x、y、z轴）
标注数据偏移量（纳米）：16868×29124×82724（x、y、z轴）
标注类别：细胞核、线粒体
数据集URL：s3://janelia-cosem-datasets/jrc_mus-kidney/jrc_mus-kidney.zarr/recon-1/labels/groundtruth/crop230
源电子显微镜数据集ID：jrc_mus-kidney
源体素尺寸（纳米）：8×8×8（x、y、z轴）
源数据尺寸（微米）：98.3×63.81×177.59（x、y、z轴）
源数据集DOI：https://doi.org/10.25378/janelia.16913035
可视化官网：https://openorganelle.janelia.org/datasets/jrc_mus-kidney
相关出版物：CellMap Segmentation Challenge, 2024

本阶段CellMap项目组成员包括：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。

本阶段CellMap项目指导委员会成员包括：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、Aubrey Weigel。