Manual organelle segmentations (crop282) in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse liver acinus (jrc_mus-liver-zon-1)

This acquisition is part of the CellMap 2024 Segmentation ChallengeChallenge DOI: https://doi.org/10.25378/janelia.c.7456966Challenge Website: https://cellmapchallenge.janelia.org/Annotation description: Dense segmentations of extracellular space in jrc_mus-liver-zon-1 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: crop282Primary Annotator: Woohyun ParkAnnotation 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 WorkroomAnnotated voxel size (nm): 32 x 32 x 32 (x, y, z)Annotated data dimensions (µm): 96 x 32 x 16 (x, y, z)Annotated data offset (nm): 32012 x 124812 x 192012 (x, y, z)Classes annotated: extracellular spaceDataset URL: s3://janelia-cosem-datasets/jrc_mus-liver-zon-1/jrc_mus-liver-zon-1.zarr/recon-1/labels/groundtruth/crop282Source (EM) dataset ID: jrc_mus-liver-zon-1Source (EM) voxel size (nm): 8 x 8 x 8 (x, y, z)Source (EM) data dimensions (µm): 397.16 x 171.61 x 188.81 (x, y, z)Source (EM) DOI: https://doi.org/10.25378/janelia.24128700Visualization website: https://openorganelle.janelia.org/datasets/jrc_mus-liver-zon-1Publication: 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.

本数据集隶属于CellMap 2024 分割挑战赛（CellMap 2024 Segmentation Challenge），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：针对jrc_mus-liver-zon-1样本中的细胞外间隙，采用Amira 3D 2021.1、经典分割工作室（Classic Segmentation Workroom）以及《用于机器学习的体积电子显微镜（volume electron microscopy，vEM）样本中细胞器手动分割 V.3》注释协议完成密集分割。
注释ID：crop282；主要注释人员：Woohyun Park；注释协议：《用于机器学习的体积电子显微镜（volume electron microscopy，vEM）样本中细胞器手动分割 V.3》（http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3）；所用软件：Amira 3D 2021.1、经典分割工作室。
标注体素尺寸（nm）：32 × 32 × 32（x、y、z轴）；标注数据维度（µm）：96 × 32 × 16（x、y、z轴）；标注数据偏移量（nm）：32012 × 124812 × 192012（x、y、z轴）；标注类别：细胞外间隙。
数据集URL：s3://janelia-cosem-datasets/jrc_mus-liver-zon-1/jrc_mus-liver-zon-1.zarr/recon-1/labels/groundtruth/crop282
源电子显微镜数据集ID：jrc_mus-liver-zon-1；源电子显微镜体素尺寸（nm）：8 × 8 × 8（x、y、z轴）；源电子显微镜数据维度（µm）：397.16 × 171.61 × 188.81（x、y、z轴）；源电子显微镜DOI：https://doi.org/10.25378/janelia.24128700
可视化网站：https://openorganelle.janelia.org/datasets/jrc_mus-liver-zon-1
相关出版物：《CellMap 2024 分割挑战赛》，2024年。
同期CellMap项目团队成员包括：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。
同期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以及Aubrey Weigel。