Manual organelle segmentations (crop236) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of Interphase COS-7 cell (jrc_cos7-1a)

<b>This acquisition is part of the CellMap 2024 Segmentation Challenge</b><b>Challenge DOI:</b> https://doi.org/10.25378/janelia.c.7456966<b>Challenge Website:</b> https://cellmapchallenge.janelia.org/<b>Annotation description</b>: Dense segmentations of mitochondrial membrane, mitochondrial lumen, vesicle membrane, endosome membrane, vesicle lumen, mitochondrial ribosome, endoplasmic reticulum lumen, endoplasmic reticulum membrane, endosome lumen, microtubule out, microtubule in, cytosol, endosome, vesicle, mitochondria, endoplasmic reticulum, microtubule, cell, endoplasmic reticulum membrane collective in jrc_cos7-1a 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.<b>Annotation ID</b>: crop236<b>Primary Annotator</b>: Alyson Petruncio<b>Annotation protocol</b>: Using Amira to manually segment organelles in vEM for machine learning V.3 (http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3)<b>Software</b>: Amira 3D 2021.1, Classic Segmentation Workroom<b>Annotated voxel size (nm)</b>: 2 x 2 x 2 (x, y, z)<b>Annotated data dimensions (µm)</b>: 0.8 x 0.8 x 0.8 (x, y, z)<b>Annotated data offset (nm)</b>: 11750 x 5690 x 10 (x, y, z)<b>Classes annotated</b>: mitochondrial membrane, mitochondrial lumen, vesicle membrane, endosome membrane, vesicle lumen, mitochondrial ribosome, endoplasmic reticulum lumen, endoplasmic reticulum membrane, endosome lumen, microtubule out, microtubule in, cytosol, endosome, vesicle, mitochondria, endoplasmic reticulum, microtubule, cell, endoplasmic reticulum membrane collective<b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_cos7-1a/jrc_cos7-1a.zarr/recon-1/labels/groundtruth/crop236<b>Source (EM) dataset ID</b>: jrc_cos7-1a<b>Source (EM) voxel size (nm)</b>: 2 x 2 x 2 (x, y, z)<b>Source (EM) data dimensions (µm)</b>: 41.22 x 8.74 x 3.63 (x, y, z)<b>Source (EM) DOI</b>: https://doi.org/10.25378/janelia.24943716<b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_cos7-1a<b>Publication:</b> <i>CellMap Segmentation Challenge,</i> 2024.<b>The CellMap Project Team during this time consisted of:</b> 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.<b>The CellMap Project Team Steering Committee during this time consisted of:</b> 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.

<b>本数据集采集属于CellMap 2024分割挑战赛（CellMap 2024 Segmentation Challenge）</b>
<b>挑战赛DOI：</b> https://doi.org/10.25378/janelia.c.7456966
<b>挑战赛官网：</b> https://cellmapchallenge.janelia.org/
<b>标注说明：</b> 针对jrc_cos7-1a样本中的如下结构进行密集分割：线粒体膜、线粒体腔、囊泡膜、内体膜、囊泡腔、线粒体核糖体、内质网腔、内质网膜、内体腔、微管外侧、微管内侧、细胞质基质、内体、囊泡、线粒体、内质网、微管、细胞、内质网膜集合体。本次标注使用Amira 3D 2021.1、经典分割工作室（Classic Segmentation Workroom）以及《使用Amira对体电子显微镜（vEM）样本中的细胞器进行手动分割以用于机器学习 V.3》标注规范。
<b>标注ID：</b> crop236
<b>主要标注人员：</b> Alyson Petruncio
<b>标注规范：</b> 《使用Amira对体电子显微镜（vEM）样本中的细胞器进行手动分割以用于机器学习 V.3》（http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3）
<b>使用软件：</b> Amira 3D 2021.1、Classic Segmentation Workroom（经典分割工作室）
<b>标注体素尺寸（nm）：</b> 2 × 2 × 2（x、y、z轴）
<b>标注数据维度（µm）：</b> 0.8 × 0.8 × 0.8（x、y、z轴）
<b>标注数据偏移量（nm）：</b> 11750 × 5690 × 10（x、y、z轴）
<b>标注类别：</b> 线粒体膜、线粒体腔、囊泡膜、内体膜、囊泡腔、线粒体核糖体、内质网腔、内质网膜、内体腔、微管外侧、微管内侧、细胞质基质、内体、囊泡、线粒体、内质网、微管、细胞、内质网膜集合体
<b>数据集URL：</b> s3://janelia-cosem-datasets/jrc_cos7-1a/jrc_cos7-1a.zarr/recon-1/labels/groundtruth/crop236
<b>源电子显微镜数据集ID：</b> jrc_cos7-1a
<b>源电子显微镜体素尺寸（nm）：</b> 2 × 2 × 2（x、y、z轴）
<b>源电子显微镜数据维度（µm）：</b> 41.22 × 8.74 × 3.63（x、y、z轴）
<b>源电子显微镜DOI：</b> https://doi.org/10.25378/janelia.24943716
<b>可视化网站：</b> https://openorganelle.janelia.org/datasets/jrc_cos7-1a
<b>发表文献：</b> <i>《CellMap分割挑战赛》</i>，2024年。
<b>此阶段CellMap项目团队成员包括：</b> 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。
<b>此阶段CellMap项目指导委员会成员包括：</b> 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。