cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25378/janelia.23411426
title: Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse liver (jrc_mus-liver-2)

description: <b>Sample: </b>Wild-type, 8 week old mouse, strain: C57BL/6 from Jackson Lab<b>Sample Description: </b>This dataset features isotropic 3D electron microscopy data of the mouse liver (jrc_mus-liver-2). The sample was obtained from an 8-week-old wild-type C57BL/6 mouse strain, sourced from Jackson Laboratory. Euthanasia was performed in accordance with IACUC guidelines, with perfusion conducted by Shu-Hsien Shu.The sample preparation involved cutting 1.5 mm punches from 100 µm-thick vibratome slices. High-pressure freezing (HPF) was performed using the Wohlwend HPF. Freeze substitution (FS) was carried out with 0.5% OsO₄, 0.1% uranyl acetate, and 20 mM 1,2,4 triazole in acetone, followed by acetone rinses. The sample was infiltrated with increasing concentrations of Durcupan in acetone, followed by three exchanges with 100% Durcupan. The embedding was completed in 100% Durcupan and cured at 60°C for 48 hours.Shu-Hsien Shu was responsible for the perfusion, while Nirmala Iyer (HHMI/Janelia) handled HPF, freeze substitution, and resin embedding. Zhiyuan Lu (HHMI/Janelia) trimmed the sample for FIBSEM, and Wei Qiu (HHMI/Janelia) performed the imaging. Post-processing was completed by Eric Trautman and Stephan Preibisch (HHMI/Janelia).This dataset provides a detailed view of the cellular architecture of a young mouse liver, contributing valuable data for research in hepatology and related areas.<b>Protocol: </b>Mouse euthanasia was performed as IACUC guidelines. Perfusion by Shu-Hsien.1.5 mm punches were cut out of 100µm thick vibratome slices and HPF using the Wohlwend HPF. FS using 0.5% OsO4, 0.1% UA,20mM 1,2,4 triazole in acetone. Acetone rinses followed by infiltration with increasing concentrations of Durcupan in Acetone and 3 exchanges of 100% Durcupan. Embedding in 100% Durcupan and curing at 60 degrees for 48 hours.<b>Contributions:</b> Sample preparation by Shu-Hsien Shu (perfusion) and Nirmala Iyer (HHMI/ Janelia) - HPF FS and resin embedding. Trimmed for FIBSEM by Zhiyuan Lu (HHMI/Janelia), and imaged by Wei Qiu (HHMI/Janelia) and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).<b>Acquisition ID:</b> jrc_mus-liver-2<b>Voxel size (nm):</b> 8.0 x 8.0 x 8.0 (X, Y, Z)<b>Data dimensions (µm): </b>82.208, 92.088, 101.704 (X, Y, Z)<b>Imaging start date:</b> 2022-10-20<b>Dataset URL: </b>s3://janelia-cosem-datasets/jrc_mus-liver-2/jrc_mus-liver-2.zarr/recon-1/em/<b>Visualization Website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-liver-2<b>Imaging duration (days): </b>9<b>Scanning speed (MHz):</b> 3.000
DOI: 10.25378/janelia.23411426.v1
title: Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse liver (jrc_mus-liver-2)

description: <b>Sample: </b>Wild-type, 8 week old mouse, strain: C57BL/6 from Jackson Lab<b>Sample Description: </b>A dataset featuring isotropic 3D electron microscopy data of the mouse kidney (jrc_mus-kidney-2). The sample was obtained from an 8-week-old, wild-type C57BL/6 mouse strain sourced from Jackson Laboratory. Mouse euthanasia was performed as IACUC guidelines. Pinch out the sample with the biopsy needle followed by high pressure freezing fixation. After low temperature reducing OTO staining, the sample was subject to dehydration, infiltration with graded ethanol and Durcupan resin, and polymerized in a 60°C oven. The sample was provided by Wei-Ping Li (HHMI/Janelia), prepared for imaging by Zhiyuan Lu (HHMI/Janelia), and imaged by Wei Qiu (HHMI/Janelia). Post-processing was conducted by Eric Trautman and Stephan Preibisch (HHMI/Janelia). This dataset offers a comprehensive view of a young mouse kidney cellular architecture and facilitates further research in hepatology and beyond.<b>Protocol: </b>Mouse euthanasia was performed as IACUC guidelines. Pinch out the sample with the biopsy needle followed by high pressure freezing fixation. After low temperature reducing OTO staining, the sample was subject to dehydration, infiltration with graded ethanol and Durcupan resin, and polymerized in a 60°C oven.<b>Contributions:</b> Sample provided by Wei-Ping Li (HHMI/Janelia), prepared for imaging by Zhiyuan Lu (HHMI/Janelia), with imaging by Wei Qiu (HHMI/Janelia), and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).<b>Acquisition ID:</b> jrc_mus-liver-2<b>Voxel size (nm):</b> 8.0 x 8.0 x 8.0 (X, Y, Z)<b>Data dimensions (µm): </b>82.208, 92.088, 101.704 (X, Y, Z)<b>Imaging start date:</b> 2022-10-20<b>Dataset URL (Redirect): </b>https://data.janelia.org/zX4wO<b>Visualization Website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-liver-2<b>Imaging duration (days): 9</b><b>Landing energy (eV):</b><b>Imaging current (nA):</b><b>Scanning speed (MHz):</b> 3.000
DOI: 10.25378/janelia.23411426.v2
title: Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse liver (jrc_mus-liver-2)

description: <b>Sample: </b>Wild-type, 8 week old mouse, strain: C57BL/6 from Jackson Lab<b>Sample Description: </b>This dataset features isotropic 3D electron microscopy data of the mouse liver (jrc_mus-liver-2). The sample was obtained from an 8-week-old wild-type C57BL/6 mouse strain, sourced from Jackson Laboratory. Euthanasia was performed in accordance with IACUC guidelines, with perfusion conducted by Shu-Hsien Shu.The sample preparation involved cutting 1.5 mm punches from 100 µm-thick vibratome slices. High-pressure freezing (HPF) was performed using the Wohlwend HPF. Freeze substitution (FS) was carried out with 0.5% OsO₄, 0.1% uranyl acetate, and 20 mM 1,2,4 triazole in acetone, followed by acetone rinses. The sample was infiltrated with increasing concentrations of Durcupan in acetone, followed by three exchanges with 100% Durcupan. The embedding was completed in 100% Durcupan and cured at 60°C for 48 hours.Shu-Hsien Shu was responsible for the perfusion, while Nirmala Iyer (HHMI/Janelia) handled HPF, freeze substitution, and resin embedding. Zhiyuan Lu (HHMI/Janelia) trimmed the sample for FIBSEM, and Wei Qiu (HHMI/Janelia) performed the imaging. Post-processing was completed by Eric Trautman and Stephan Preibisch (HHMI/Janelia).This dataset provides a detailed view of the cellular architecture of a young mouse liver, contributing valuable data for research in hepatology and related areas.<b>Protocol: </b>Mouse euthanasia was performed as IACUC guidelines. Perfusion by Shu-Hsien.1.5 mm punches were cut out of 100µm thick vibratome slices and HPF using the Wohlwend HPF. FS using 0.5% OsO4, 0.1% UA,20mM 1,2,4 triazole in acetone. Acetone rinses followed by infiltration with increasing concentrations of Durcupan in Acetone and 3 exchanges of 100% Durcupan. Embedding in 100% Durcupan and curing at 60 degrees for 48 hours.<b>Contributions:</b> Sample preparation by Shu-Hsien Shu (perfusion) and Nirmala Iyer (HHMI/ Janelia) - HPF FS and resin embedding. Trimmed for FIBSEM by Zhiyuan Lu (HHMI/Janelia), and imaged by Wei Qiu (HHMI/Janelia) and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).<b>Acquisition ID:</b> jrc_mus-liver-2<b>Voxel size (nm):</b> 8.0 x 8.0 x 8.0 (X, Y, Z)<b>Data dimensions (µm): </b>82.208, 92.088, 101.704 (X, Y, Z)<b>Imaging start date:</b> 2022-10-20<b>Dataset URL: </b>s3://janelia-cosem-datasets/jrc_mus-liver-2/jrc_mus-liver-2.zarr/recon-1/em/<b>Visualization Website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-liver-2<b>Imaging duration (days): </b>9<b>Scanning speed (MHz):</b> 3.000
DOI: 10.34740/kaggle/dsv/12059550
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.25378/janelia.25352215
title: Refined, automatic nuclei segmentations in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of P7 mouse kidney (jrc_mus-kidney-3)

description: <b>Segmentation description:</b> Nuclei segmentations in jrc_mus-kidney-3 using Cellpose 2.0 with minimal manual corrections.<b>Software</b>: Cellpose 2.0<b>Software DOI</b>: https://doi.org/10.1038/s41592-022-01663-4<b>GPU: </b>NVIDIA TITAN RTX<b>RAM: </b>768.0 GiB<b>Label voxel size (nm)</b>: 128 x 128 x 128 (x, y, z)<b>Reconstructed data dimensions (µm)</b>: 143.36 x 120.78 x 163.07 (x, y, z)<b>Classes annotated</b>: Nucleus<b>Source dataset (EM) ID</b>: jrc_mus-kidney-3<b>Source dataset (EM) voxel size (nm)</b>: 8 x 8 x 8 (x, y, z)<b>Source dataset (EM) data dimensions (µm)</b>: 143.36 x 120.78 x 163.07 (x, y, z)<b>Source dataset (EM) </b>https://doi.org/10.25378/janelia.24020799<b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_mus-kidney-3/jrc_mus-kidney-3.zarr/recon-1/labels/inference/segmentations/nuc/<b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-kidney-3<br>
DOI: 10.25378/janelia.25352215.v1
title: Refined, automatic nuclei segmentations in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of P7 mouse kidney (jrc_mus-kidney-3)

description: <b>Segmentation description:</b> Nuclei segmentations in jrc_mus-kidney-3 using Cellpose 2.0 with minimal manual corrections.<b>Software</b>: Cellpose 2.0<b>Software DOI</b>: https://doi.org/10.1038/s41592-022-01663-4<b>GPU: </b>NVIDIA TITAN RTX<b>RAM: </b>768.0 GiB<b>Label voxel size (nm)</b>: 128 x 128 x 128 (x, y, z)<b>Reconstructed data dimensions (µm)</b>: 143.36 x 120.78 x 163.07 (x, y, z)<b>Classes annotated</b>: Nucleus<b>Source dataset (EM) ID</b>: jrc_mus-kidney-3<b>Source dataset (EM) voxel size (nm)</b>: 8 x 8 x 8 (x, y, z)<b>Source dataset (EM) data dimensions (µm)</b>: 143.36 x 120.78 x 163.07 (x, y, z)<b>Source dataset (EM) </b>https://doi.org/10.25378/janelia.24020799<b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_mus-kidney-3/jrc_mus-kidney-3.zarr/recon-1/labels/inference/segmentations/nuc/<b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-kidney-3<br>
DOI: 10.15468/dl.bmxnyk
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "ScientificName is Raja clavata",
 "Geometry POLYGON((33.44664 46.39149, 32.46648 47.15155, 31.71491 47.51346, 31.32894 47.35279, 30.64606 46.8069, 29.57722 46.68484, 29.51784 46.31697, 29.18711 45.85929, 28.45741 45.16199, 28.39107 44.50339, 27.99305 43.62155, 27.32969 43.11521, 27.39603 42.08986, 27.66137 41.4218, 28.72276 41.17261, 30.05043 40.80487, 31.64431 40.90533, 33.23818 41.53805, 34.56641 41.57119, 35.62709 41.16837, 37.35379 40.66653, 39.52323 40.63294, 41.38275 40.7672, 42.59793 42.33233, 39.7201 44.13845, 38.24374 44.73164, 37.44423 45.08311, 36.14845 45.19979, 35.56949 45.18036, 34.93539 45.18036, 34.27372 45.43243, 33.83261 45.89485, 33.44664 46.39149))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020237-250525065834625/datasets/export for details.
DOI: 10.15468/dl.qxewsd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "ScientificName is Raja clavata",
 "Geometry POLYGON((33.44664 46.39149, 32.46648 47.15155, 31.71491 47.51346, 31.32894 47.35279, 30.64606 46.8069, 29.57722 46.68484, 29.51784 46.31697, 29.18711 45.85929, 28.45741 45.16199, 28.39107 44.50339, 27.99305 43.62155, 27.32969 43.11521, 27.39603 42.08986, 27.66137 41.4218, 28.72276 41.17261, 30.05043 40.80487, 31.64431 40.90533, 33.23818 41.53805, 34.56641 41.57119, 35.62709 41.16837, 37.35379 40.66653, 39.52323 40.63294, 41.38275 40.7672, 42.59793 42.33233, 39.7201 44.13845, 38.24374 44.73164, 37.44423 45.08311, 36.14845 45.19979, 35.56949 45.18036, 34.93539 45.18036, 34.27372 45.43243, 33.83261 45.89485, 33.44664 46.39149))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020238-250525065834625/datasets/export for details.
DOI: 10.25378/janelia.23411009
title: Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse kidney (jrc_mus-kidney-2)

description: <b>Sample: </b>Wild-type, 8 week old mouse, strain: C57BL/6 from Jackson Lab<b>Sample Description: </b>This dataset features isotropic 3D electron microscopy data of the mouse kidney (jrc_mus-kidney-2). The sample was obtained from an 8-week-old wild-type C57BL/6 mouse strain, sourced from Jackson Laboratory. Euthanasia was performed in accordance with IACUC guidelines, with perfusion conducted by Shu-Hsien.The sample preparation involved cutting 1.5 mm punches from 100 µm-thick vibratome slices. High-pressure freezing (HPF) was performed using the Wohlwend HPF. Freeze substitution (FS) was carried out with 0.5% OsO₄, 0.1% uranyl acetate, and 20 mM 1,2,4 triazole in acetone, followed by acetone rinses. The sample was infiltrated with increasing concentrations of Durcupan in acetone, followed by three exchanges with 100% Durcupan. The embedding was completed in 100% Durcupan and cured at 60°C for 48 hours.Shu-Hsien Shu was responsible for the perfusion, while Nirmala Iyer (HHMI/Janelia) handled HPF, freeze substitution, and resin embedding. Zhiyuan Lu (HHMI/Janelia) trimmed the sample for FIBSEM, and Wei Qiu (HHMI/Janelia) performed the imaging. Post-processing was completed by Eric Trautman and Stephan Preibisch (HHMI/Janelia).This dataset offers a detailed view of the cellular architecture of a young mouse kidney, providing valuable data for research in nephrology and related fields.<b>Protocol: </b>Mouse euthanasia was performed as IACUC guidelines. Perfusion by Shu-Hsien.1.5 mm punches were cut out of 100µm thick vibratome slices and HPF using the Wohlwend HPF. FS using 0.5% OsO4, 0.1% UA,20mM 1,2,4 triazole in acetone. Acetone rinses followed by infiltration with increasing concentrations of Durcupan in Acetone and 3 exchanges of 100% Durcupan. Embedding in 100% Durcupan and curing at 60 degrees for 48 hours.<b>Contributions: </b>Sample preparation by Shu-Hsien Shu (perfusion) and Nirmala Iyer (HHMI/ Janelia) - HPF FS and resin embedding. Trimmed for FIBSEM by Zhiyuan Lu (HHMI/Janelia), and imaged by Wei Qiu (HHMI/Janelia) and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).<b>Acquisition ID: </b>jrc_mus-kidney-2<b>Voxel size (nm):</b> 8.0 x 8.0 x 8.0 (X, Y, Z)<b>Imaging duration (days): 13</b><b>Data dimensions (µm): </b>102.992 x 101.464 x 110.536 (X,Y,Z)<b>Imaging start date:</b> 2022-11-01<b>Dataset URL: </b>s3://janelia-cosem-datasets/jrc_mus-kidney-2/jrc_mus-kidney-2.zarr/recon-1/em/<b>Visualization Website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-kidney-2<br>
DOI: 10.25378/janelia.23411009.v2
title: Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse kidney (jrc_mus-kidney-2)

description: <b>Sample: </b>Wild-type, 8 week old mouse, strain: C57BL/6 from Jackson Lab<b>Sample Description: </b>This dataset features isotropic 3D electron microscopy data of the mouse kidney (jrc_mus-kidney-2). The sample was obtained from an 8-week-old wild-type C57BL/6 mouse strain, sourced from Jackson Laboratory. Euthanasia was performed in accordance with IACUC guidelines, with perfusion conducted by Shu-Hsien.The sample preparation involved cutting 1.5 mm punches from 100 µm-thick vibratome slices. High-pressure freezing (HPF) was performed using the Wohlwend HPF. Freeze substitution (FS) was carried out with 0.5% OsO₄, 0.1% uranyl acetate, and 20 mM 1,2,4 triazole in acetone, followed by acetone rinses. The sample was infiltrated with increasing concentrations of Durcupan in acetone, followed by three exchanges with 100% Durcupan. The embedding was completed in 100% Durcupan and cured at 60°C for 48 hours.Shu-Hsien Shu was responsible for the perfusion, while Nirmala Iyer (HHMI/Janelia) handled HPF, freeze substitution, and resin embedding. Zhiyuan Lu (HHMI/Janelia) trimmed the sample for FIBSEM, and Wei Qiu (HHMI/Janelia) performed the imaging. Post-processing was completed by Eric Trautman and Stephan Preibisch (HHMI/Janelia).This dataset offers a detailed view of the cellular architecture of a young mouse kidney, providing valuable data for research in nephrology and related fields.<b>Protocol: </b>Mouse euthanasia was performed as IACUC guidelines. Perfusion by Shu-Hsien.1.5 mm punches were cut out of 100µm thick vibratome slices and HPF using the Wohlwend HPF. FS using 0.5% OsO4, 0.1% UA,20mM 1,2,4 triazole in acetone. Acetone rinses followed by infiltration with increasing concentrations of Durcupan in Acetone and 3 exchanges of 100% Durcupan. Embedding in 100% Durcupan and curing at 60 degrees for 48 hours.<b>Contributions: </b>Sample preparation by Shu-Hsien Shu (perfusion) and Nirmala Iyer (HHMI/ Janelia) - HPF FS and resin embedding. Trimmed for FIBSEM by Zhiyuan Lu (HHMI/Janelia), and imaged by Wei Qiu (HHMI/Janelia) and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).<b>Acquisition ID: </b>jrc_mus-kidney-2<b>Voxel size (nm):</b> 8.0 x 8.0 x 8.0 (X, Y, Z)<b>Imaging duration (days): 13</b><b>Data dimensions (µm): </b>102.992 x 101.464 x 110.536 (X,Y,Z)<b>Imaging start date:</b> 2022-11-01<b>Dataset URL: </b>s3://janelia-cosem-datasets/jrc_mus-kidney-2/jrc_mus-kidney-2.zarr/recon-1/em/<b>Visualization Website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-kidney-2<br>
DOI: 10.25378/janelia.23411009.v1
title: Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse kidney (jrc_mus-kidney-2)

description: <b>Sample: </b>Wild-type, 8 week old mouse, strain: C57BL/6 from Jackson Lab<b>Sample Description: </b>A dataset featuring isotropic 3D electron microscopy data of the mouse kidney (jrc_mus-kidney-2). The sample was obtained from an 8-week-old, wild-type C57BL/6 mouse strain sourced from Jackson Laboratory. Mouse euthanasia was performed as IACUC guidelines. Pinch out the sample with the biopsy needle followed by high pressure freezing fixation. After low temperature reducing OTO staining, the sample was subject to dehydration, infiltration with graded ethanol and Durcupan resin, and polymerized in a 60°C oven. The sample was provided by Wei-Ping Li (HHMI/Janelia), prepared for imaging by Zhiyuan Lu (HHMI/Janelia), and imaged by Wei Qiu (HHMI/Janelia). Post-processing was conducted by Eric Trautman and Stephan Preibisch (HHMI/Janelia). This dataset offers a comprehensive view of a young mouse kidney cellular architecture and facilitates further research in nephrology and beyond.<b>Protocol: </b>Mouse euthanasia was performed as IACUC guidelines. Pinch out the sample with the biopsy needle followed by high pressure freezing fixation. After low temperature reducing OTO staining, the sample was subject to dehydration, infiltration with graded ethanol and Durcupan resin, and polymerized in a 60°C oven.<b>Contributions: </b>Sample provided by Wei-Ping Li (HHMI/Janelia), prepared for imaging by Zhiyuan Lu (HHMI/Janelia), with imaging by Wei Qiu (HHMI/Janelia), and post-processing by Eric Trautman and Stephan Preibisch (HHMI/Janelia).<b>Acquisition ID: </b>jrc_mus-kidney-2<b>Voxel size (nm):</b> 8.0 x 8.0 x 8.0 (X, Y, Z)<b>Data dimensions (µm): </b>102.992 x 101.464 x 110.536 (X,Y,Z)<b>Imaging start date:</b> 2022-11-01<b>Dataset URL (Redirect): </b>https://data.janelia.org/X0Ata<b>Visualization Website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-kidney-2<b>Imaging duration (days): 13</b><b>Landing energy (eV):</b><b>Imaging current (nA):</b><b>Scanning speed (MHz):</b>
DOI: 10.15468/dl.dfqhne
title: Occurrence Download

description: A dataset containing 92 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Eulemur mongoz (Linnaeus, 1766))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 92 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020239-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25378/janelia.25352212
title: Refined, automatic nuclei segmentations in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of P7 mouse hippocampus (jrc_mus-hippocampus-1)

description: <b>Segmentation description:</b> Nuclei segmentations in jrc_mus-hippocampus-1 using Cellpose 2.0 with cursory manual corrections.<b>Software</b>: Cellpose 2.0<b>Software DOI</b>: https://doi.org/10.1038/s41592-022-01663-4<b>GPU: </b>NVIDIA TITAN RTX<b>RAM: </b>768.0 GiB<b>Label voxel size (nm)</b>: 128 x 128 x 128 (x, y, z)<b>Reconstructed data dimensions (µm)</b>: 141.38 x 142.63 x 196.38 (x, y, z)<b>Classes annotated</b>: Nucleus<b>Source dataset (EM) ID</b>: jrc_mus-hippocampus-1<b>Source dataset (EM) voxel size (nm)</b>: 8 x 8 x 8 (x, y, z)<b>Source dataset (EM) data dimensions (µm)</b>: 141.38 x 142.63 x 196.38 (x, y, z)<b>Source dataset (EM) DOI</b>: https://doi.org/10.25378/janelia.24085176<b>Dataset URL</b>:s3://janelia-cosem-datasets/jrc_mus-hippocampus-1/jrc_mus-hippocampus-1.zarr/recon-1/labels/inference/segmentations/nuc/<b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-hippocampus-1<br><br>
DOI: 10.25378/janelia.25352212.v1
title: Refined, automatic nuclei segmentations in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of P7 mouse hippocampus (jrc_mus-hippocampus-1)

description: <b>Segmentation description:</b> Nuclei segmentations in jrc_mus-hippocampus-1 using Cellpose 2.0 with cursory manual corrections.<b>Software</b>: Cellpose 2.0<b>Software DOI</b>: https://doi.org/10.1038/s41592-022-01663-4<b>GPU: </b>NVIDIA TITAN RTX<b>RAM: </b>768.0 GiB<b>Label voxel size (nm)</b>: 128 x 128 x 128 (x, y, z)<b>Reconstructed data dimensions (µm)</b>: 141.38 x 142.63 x 196.38 (x, y, z)<b>Classes annotated</b>: Nucleus<b>Source dataset (EM) ID</b>: jrc_mus-hippocampus-1<b>Source dataset (EM) voxel size (nm)</b>: 8 x 8 x 8 (x, y, z)<b>Source dataset (EM) data dimensions (µm)</b>: 141.38 x 142.63 x 196.38 (x, y, z)<b>Source dataset (EM) DOI</b>: https://doi.org/10.25378/janelia.24085176<b>Dataset URL</b>:s3://janelia-cosem-datasets/jrc_mus-hippocampus-1/jrc_mus-hippocampus-1.zarr/recon-1/labels/inference/segmentations/nuc/<b>Visualization website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-hippocampus-1<br><br>
DOI: 10.15468/dl.ak8xa9
title: Occurrence Download

description: A dataset containing 13 records in GBIF matching the query:
SELECT datasetKey, license, COUNT(*) AS n FROM occurrence WHERE iucnRedListCategory IN ('NT','VU','EN','CR','EW','EX','LC') AND occurrenceStatus = 'PRESENT' AND countryCode = 'ES' AND "year" &gt;= 1980 AND speciesKey IN (2441454,2441461) AND hasCoordinate = TRUE AND (coordinateUncertaintyInMeters &lt;= 1000 OR coordinateUncertaintyInMeters IS NULL) AND speciesKey IS NOT NULL AND NOT ARRAY_CONTAINS(issue, 'ZERO_COORDINATE') AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_OUT_OF_RANGE') AND NOT ARRAY_CONTAINS(issue, 'COORDINATE_INVALID') AND NOT ARRAY_CONTAINS(issue, 'COUNTRY_COORDINATE_MISMATCH') GROUP BY datasetKey, license

 The dataset's 13 records were derived from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020223-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.