cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/a2ah0-8rd31
title: HUVECs infx pNLGFP

description: single tilt. constant angular increment, step: 1.0. tilt range: (-60, 60).         dosage: 150/A2. defocus: -6um. magnification: 19000.
description: <strong>Tilt Series Date:</strong> 2013-07-05</p>
<strong>Data Taken By:</strong> Cora Woodward</p>
<strong>Species / Specimen:</strong> HUVECs</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -6.0 μm,  magnification: 19000x. </p>
<strong>Microscope:</strong> Janelia Titan</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> UCSFTomo</p>
<strong>Collaborators and Roles:</strong> pNLGFP obtained from Irvin Chen (UCLA)</p>
<strong>Sample Preparation:</strong> Whole cells were grown on Au finder grids and infected with pNLGFP-VSVG. Sample frozen 24h post infection</p>
description: Files available via S3 at ://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2013-07-05-27/rawdata/</p>13jul05_C161-2_HUVECspnl24hPI_montage_33x33_0003.mrc,  Tilt Series (Pixel Size 0.56 nm), 3.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2013-07-05-27/rawdata/13jul05_C161-2_HUVECspnl24hPI_montage_33x33_0003.mrc"
        > <i class="download icon"></i> Download </a></p>

        13jul05_C161-2_HUVECspnl24hPI_montage_33x33_0003_full.rec,  Reconstruction (Pixel Size 2.24 nm), 602.8 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/n6rf5-epq63
title: COS7 pNLGFP

description: Cos7 cells transfected with pNLGFP provirus construct. Sample #C112
description: <strong>Tilt Series Date:</strong> 2012-05-14</p>
<strong>Data Taken By:</strong> Cora Woodward</p>
<strong>Species / Specimen:</strong> Cercopithecus aethiops (monkey, African green)</p>
<strong>Strain:</strong> COS-7 ATCC CRL-1651</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -6.0 μm,  magnification: 22500x. </p>
<strong>Acquisition Software:</strong> UCSF tomo</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> imod</p>
<strong>Collaborators and Roles:</strong> pNLGFP construct provided by Irvin Chen, UCLA. Cells transfected, frozen and imaged at Caltech by Cora Woodward</p>
<strong>Purification / Growth Conditions / Treatment:</strong> whole cells grown on grids and transfected using lipofectamine</p>
<strong>Sample Preparation:</strong> manual blotting</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2012-05-14-19/3dimage_69346/</p>12may14_C112_2_pNLonly_AT3BT1d_0009_full.rec,  Reconstruction (Pixel Size 2.0 nm), 619.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        12may14_C112_2_pNLonly_AT3BT1d_0009.mrc,  Tilt Series (Pixel Size 0.5 nm), 677.3 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/y1dxj-ee524
title: Bsubtilis_ponA

description: Bsubtilis_spores_ponA
description: <strong>Tilt Series Date:</strong> 2012-01-20</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Bacillus subtilis </p>
<strong>Strain:</strong> MJ007, ponA null</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Acquisition Software:</strong> UCSF tomo</p>
<strong>Upload Method:</strong> uploadraptor</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> strain from Kit Pogliano at UCSD</p>
<strong>Purification / Growth Conditions / Treatment:</strong> sporulation media</p>
<strong>Sample Preparation:</strong> quantifoil grid R2/2, 20nm gold, 100% humidity</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2012-01-20-4/rawdata/</p>mj007_20004.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2012-01-20-4/rawdata/mj007_20004.mrc"
        > <i class="download icon"></i> Download </a></p>

        mj007_20004_part.rec,  Reconstruction (Pixel Size 1.9 nm), 1.2 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2012-01-20-4/3dimage_25758/mj007_20004_part.rec"
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DOI: 10.15468/dl.kp7t7j
title: Occurrence Download

description: A dataset containing 885595 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is BirdMap Data - GPS tracking of Storks, Cranes and birds of prey, breeding in Northern and Eastern Europe"
 ]
}

 The dataset includes 885595 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045844-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/j8znv-bjc45
title: Agrobacterium tumefaciens

description: Agro C58
description: <strong>Tilt Series Date:</strong> 2013-10-16</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Agrobacterium tumefaciens</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Pat Zambryski</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells grown on solid medium and manually blotted</p>
<strong>Sample Preparation:</strong> Manual blot</p>
description: Files available via S3 at ttps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-10-16-19/rawdata/</p>c58_home_2020009.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        c58_home_2020009_full.rec,  Reconstruction (Pixel Size 1.56 nm), 801.8 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/1wc7z-p6b44
title: JT5 on xylose

description: JT5
description: <strong>Tilt Series Date:</strong> 2014-07-20</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Bacteroidetes</p>
<strong>Strain:</strong> JT5-1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> reupload_downloaded</p>
<strong>Processing Software Used:</strong> IMOD</p>
<strong>Collaborators and Roles:</strong> Eric Matson</p>
<strong>Purification / Growth Conditions / Treatment:</strong> cells were grown on xylose as a carbon source</p>
<strong>Sample Preparation:</strong> Vitrobot</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-07-20-4/rawdata/</p>JT5_xyl0004.mrc,  Tilt Series (Pixel Size 0.5 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-07-20-4/rawdata/JT5_xyl0004.mrc"
        > <i class="download icon"></i> Download </a></p>

        JT5_xyl0004_full.rec,  Reconstruction (Pixel Size 0.0 nm), 445.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.hz7az2
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Melanotaenia rubrivittata)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045873-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/b7eq0-2a385
title: HeLa cells

description: Raw data files of HeLa cells
description: <strong>Tilt Series Date:</strong> 2014-11-13</p>
<strong>Data Taken By:</strong> Rasika Ramdasi</p>
<strong>Species / Specimen:</strong> HeLa cells</p>
<strong>Strain:</strong> ATCC</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-55.0°, 55.0°), step: 1°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -10.0 μm,  magnification: 18000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> UCSF tomo</p>
<strong>Collaborators and Roles:</strong> cells and siRNA obtained from Doug Mackay/ Cathrine Ullman</p>
<strong>Sample Preparation:</strong> HeLa cells+ siRNA NUP153+ Thymidine 2mM, 14 h post thymidine release</p>
  rra2014-11-13-57_slicer10588.jpg: actin
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-11-13-57/rawdata/</p>midbody70010.mrc,  Tilt Series (Pixel Size 0.6 nm), 3.2 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-11-13-57/rawdata/midbody70010.mrc"
        > <i class="download icon"></i> Download </a></p>

        midbody70010_full.rec,  Reconstruction (Pixel Size 2.4 nm), 623.6 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-11-13-57/3dimage_48109/midbody70010_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.7386kp
title: Occurrence Download

description: A dataset containing 1176 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pterorhinus lanceolatus",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1176 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045877-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z7j7vp
title: Occurrence Download

description: A dataset containing 33465 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Trombidiformes",
 "Year 2005-2007",
 "Continent is Europe",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 33465 records from 116 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045876-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2ast4v
title: Occurrence Download

description: A dataset containing 23513 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Trombidiformes",
 "Year 1999-2001",
 "Continent is Europe",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 23513 records from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045875-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/b5qgf-0pj12
title: Agro_C58

description: Agro_liq_pl_25C
description: <strong>Tilt Series Date:</strong> 2014-09-11</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Agrobacterium tumefaciens</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Acquisition Software:</strong> UCSF tomo</p>
<strong>Upload Method:</strong> uploadraptor</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Pat Zambryski</p>
<strong>Purification / Growth Conditions / Treatment:</strong> AB media</p>
<strong>Sample Preparation:</strong> quantifoil grid R2/2, 20nm gold, 100% humidity</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-09-11-8/rawdata/</p>t210001.mrc,  Tilt Series (Pixel Size 0.5 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-09-11-8/rawdata/t210001.mrc"
        > <i class="download icon"></i> Download </a></p>

        16_full.rec,  Reconstruction (Pixel Size 2.0 nm), 890.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-09-11-8/3dimage_56648/16_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/d5syv-we943
title: Agro Bald VirB8-GFP

description: the bald strain lacks flagellin 1-3 and is considered non-motile
description: <strong>Tilt Series Date:</strong> 2013-07-02</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Agrobacterium tumefaciens</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Pat Zambryski</p>
<strong>Purification / Growth Conditions / Treatment:</strong> cells were grown at 19C and induced for T4SS</p>
<strong>Sample Preparation:</strong> Vitrobot</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-07-02-2/rawdata/</p>bald_gfp20002.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        bald_gfp20002_part121_11.rec,  Reconstruction (Pixel Size 1.92 nm), 534.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/y70tn-ghr63
title: Streptococcus pneumoniae

description: wild type, no capsule
description: <strong>Tilt Series Date:</strong> 2013-09-08</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Streptococcus pneumoniae</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Andrew Camili</p>
<strong>Purification / Growth Conditions / Treatment:</strong> wt</p>
<strong>Sample Preparation:</strong> Vitrobot</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-08-10/rawdata/</p>wt0010.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        wt0010_part121_35.rec,  Reconstruction (Pixel Size 1.92 nm), 356.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/nfhg2-xv183
title: nitrosopumilus maritimus

description: Looking for dividing cells
description: <strong>Tilt Series Date:</strong> 2014-11-26</p>
<strong>Data Taken By:</strong> Rasika Ramdasi</p>
<strong>Species / Specimen:</strong> Nitrosopumilus maritimus</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -10.0 μm,  magnification: 19000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> UCSF tomo</p>
<strong>Collaborators and Roles:</strong> With David Stahl</p>
  rra2014-11-26-8_slicer12782.jpg: Cytoplasmic ladder like st.
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-11-26-8/rawdata/</p>1-1-new-atlas-SA0008.mrc,  Tilt Series (Pixel Size 0.56 nm), 3.3 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        1-1-new-atlas-SA0008_full.rec,  Reconstruction (Pixel Size 2.24 nm), 602.8 MB  
        
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DOI: 10.22002/grett-kdp19
title: HIV capsid purified trim5 alpha

description: 26/A2 slit B grid, 22500 8 defocus  0.3 exposure
description: <strong>Tilt Series Date:</strong> 2013-12-12</p>
<strong>Data Taken By:</strong> Stephen Carter</p>
<strong>Species / Specimen:</strong> HIV cores</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 26.0 eV/Å²,  defocus: -8.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> 3dmod and SIRT</p>
<strong>Collaborators and Roles:</strong> Wes Sundquist</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Purified recombinant trim5 alpha decorated HIV cores</p>
<strong>Sample Preparation:</strong> B grid</p>
description: Files available via S3 at ttps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/scd2013-12-12-7/rawdata/</p>Trim5alpha22500bgrid0007.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        Trim5alpha22500bgrid0007_full.rec,  Reconstruction (Pixel Size 1.92 nm), 445.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/4fvhn-2j302
title: Methanotroph

description: Methanotroph_starved
description: <strong>Tilt Series Date:</strong> 2013-06-22</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Methyloprofundus sedimenti</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Acquisition Software:</strong> UCSF tomo</p>
<strong>Upload Method:</strong> uploadraptor</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Victoria Orphan</p>
<strong>Purification / Growth Conditions / Treatment:</strong> starved</p>
<strong>Sample Preparation:</strong> quantifoil grid R2/2, 20nm gold, 100% humidity</p>
description: Files available via S3 at ps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-06-22-39/rawdata/</p>methano_starved0008.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.4 GB  
        
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        methano_starved0008_full.rec,  Reconstruction (Pixel Size 1.92 nm), 712.7 MB  
        
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