cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/7ny2x-kb870
title: dK203 uninduced grown 2 days

description: dK203 is the dQ167 strain in which dK has also been deactivated. It is only inducible for dQ.
description: <strong>Tilt Series Date:</strong> 2014-12-21</p>
<strong>Data Taken By:</strong> Poorna Subramanian</p>
<strong>Species / Specimen:</strong> Magnetospirillum magneticum </p>
<strong>Strain:</strong> deltaQ 167</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -15.0 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> Raptor</p>
<strong>Collaborators and Roles:</strong> Arash Komeili</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2014-12-21-16/rawdata/</p>dkuninduced_atlas6_montage10001.mrc,  Tilt Series (Pixel Size 0.6 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        dkuninduced_atlas6_montage10001_part121_14.rec,  Reconstruction (Pixel Size 2.4 nm), 623.6 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        psa2014-12-21-16_slicer16870.png,  Possible multiple small REZ (ribosome exclusion zones) which are often near spherical bodies (granules or magnetosomes?) .  -andrew, 1.1 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/Caps/psa2014-12-21-16_slicer16870.png"
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DOI: 10.22002/a2g6w-dvd97
title: Agro C58

description: Wild type Agrobacterium C58
description: <strong>Tilt Series Date:</strong> 2013-09-13</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: -8.0 μm,  magnification: 34x. </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> Raptor</p>
<strong>Collaborators and Roles:</strong> Pat Zambryski</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown on agar plates for 2 days on Au grids</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-19/rawdata/</p>C58_au_34k0019.mrc,  Tilt Series (Pixel Size 0.32 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-19/rawdata/C58_au_34k0019.mrc"
        > <i class="download icon"></i> Download </a></p>

        C58_au_34k0019_full.rec,  Reconstruction (Pixel Size 1.28 nm), 801.8 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-19/3dimage_30942/C58_au_34k0019_full.rec"
        > <i class="download icon"></i> Download </a></p>

        C58_au_34k0019_full.rec,  Reconstruction (Pixel Size 0.0 nm), 801.8 MB  
        
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DOI: 10.15468/dl.5h99w5
title: Occurrence Download

description: A dataset containing 2194 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Genista versicolor pumila"
 ]
}

 The dataset includes 2194 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037833-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/awvqz-m4j56
title: Agro C58

description: Wild type Agrobacterium C58
description: <strong>Tilt Series Date:</strong> 2013-09-13</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: -8.0 μm,  magnification: 34x. </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> Raptor</p>
<strong>Collaborators and Roles:</strong> Pat Zambryski</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown on agar plates for 2 days on Au grids</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-35/rawdata/</p>C58_au_34k0035.mrc,  Tilt Series (Pixel Size 0.32 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-35/rawdata/C58_au_34k0035.mrc"
        > <i class="download icon"></i> Download </a></p>

        C58_au_34k0035_part121_63.rec,  Reconstruction (Pixel Size 1.28 nm), 801.8 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        C58_au_34k0035_part121_63.rec,  Reconstruction (Pixel Size 0.0 nm), 801.8 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/pyvjg-qt385
title: Agro C58

description: Wild type Agrobacterium C58
description: <strong>Tilt Series Date:</strong> 2013-09-13</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: -8.0 μm,  magnification: 34x. </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> Raptor</p>
<strong>Collaborators and Roles:</strong> Pat Zambryski</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown on agar plates for 2 days on Au grids</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-23/rawdata/</p>C58_au_34k0023.mrc,  Tilt Series (Pixel Size 0.32 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-23/rawdata/C58_au_34k0023.mrc"
        > <i class="download icon"></i> Download </a></p>

        C58_au_34k0023_full.rec,  Reconstruction (Pixel Size 1.28 nm), 801.8 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-23/3dimage_30964/C58_au_34k0023_full.rec"
        > <i class="download icon"></i> Download </a></p>

        C58_au_34k0023_full.rec,  Reconstruction (Pixel Size 0.0 nm), 801.8 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-09-13-23/3dimage_49111/C58_au_34k0023_full.rec"
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DOI: 10.15468/dl.6c4nvu
title: Occurrence Download

description: A dataset containing 717 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bouteloua uniflora"
 ]
}

 The dataset includes 717 records from 68 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037830-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/ffepe-m2r25
title: Agrobacterium tumefaciens

description: Agrobacterium_VirB8-GFP
description: <strong>Tilt Series Date:</strong> 2013-05-09</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> strain from PatZambryski</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/etl2013-05-09-20/rawdata/</p>virb8_old0003.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-05-09-20/rawdata/virb8_old0003.mrc"
        > <i class="download icon"></i> Download </a></p>

        virb8_old0003_part121_11.rec,  Reconstruction (Pixel Size 1.92 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-05-09-20/3dimage_32612/virb8_old0003_part121_11.rec"
        > <i class="download icon"></i> Download </a></p>

        VirB80003_part123_3.rec,  Reconstruction (Pixel Size 1.92 nm), 430.6 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2013-05-09-20/3dimage_32613/VirB80003_part123_3.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/bsy7k-5ah58
title: Cryo-sectioned Jurkat

description: Jurkats were infected with pNLGFP virus then HP frozen and cryo-sectioned by Mark Ladinsky-Grid4
description: <strong>Tilt Series Date:</strong> 2012-03-29</p>
<strong>Data Taken By:</strong> Cora Woodward</p>
<strong>Species / Specimen:</strong> Jurkat Human T-cell</p>
<strong>Strain:</strong> Clone E6-1</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: -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> Cryo-sectioning by Mark Ladinsky.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> infected VSVG-pNL4GFP</p>
<strong>Sample Preparation:</strong> cryo-sectioned by Mark Ladinsky</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2012-03-29-12/3dimage_69196/</p>12mar29_Jurkatcryosec_tgtsq7_AtlasBT10001_ns_full.rec,  Reconstruction (Pixel Size 2.0 nm), 792.8 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        12mar29_Jurkatcryosec_tgtsq7_AtlasBT10001_ns.st,  Tilt Series (Pixel Size 0.5 nm), 619.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        12mar29_Jurkatcryosec_tgtsq7_AtlasBT10001_ns_full.tiff,  file associated to 3D Image #69196, 1.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/vtzef-hcx16
title: Vibrio Yi-Wei style

description: Strain MKW1383 grown in conditions Yi-Wei uses for Bdellovibrio predation
description: <strong>Tilt Series Date:</strong> 2014-02-21</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Vibrio cholerae</p>
<strong>Strain:</strong> O1 biovar El Tor</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -10.0 μm,  magnification: 34000x. </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> Raptor</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grown 24 hours in LB at 30C; diluted 150 µL into 2 mL Ca-HEPES buffer and grew at 30C for another 16 hours</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2014-02-21-14/rawdata/</p>VibrioYiWeiStyle0014.mrc,  Tilt Series (Pixel Size 0.32 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2014-02-21-14/rawdata/VibrioYiWeiStyle0014.mrc"
        > <i class="download icon"></i> Download </a></p>

        VibrioYiWeiStyle0014.rec,  Reconstruction (Pixel Size 0.0 nm), 1.8 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2014-02-21-14/3dimage_46699/VibrioYiWeiStyle0014.rec"
        > <i class="download icon"></i> Download </a></p>

        VibrioYiWeiStyle0014SIRTrot.rec,  Reconstruction (Pixel Size 0.0 nm), 7.1 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2014-02-21-14/3dimage_46700/VibrioYiWeiStyle0014SIRTrot.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.ha8zf6
title: Occurrence Download

description: A dataset containing 751 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Packera macounii"
 ]
}

 The dataset includes 751 records from 65 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037832-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/kzz1n-6pw58
title: Campylobacter jejuni

description: Session notes: Campy motB mutant, filtered 0.28, 0.02 after binning 2x more (to ~5.5nm resolution) Tilt series notes:  Tomogram notes:
description: <strong>Tilt Series Date:</strong> 2012-01-13</p>
<strong>Data Taken By:</strong> Morgan Beeby</p>
<strong>Species / Specimen:</strong> Campylobacter jejuni</p>
<strong>Strain:</strong> subsp. jejuni 81116</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-66.0°, 66.0°), step: 1.5°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: 15.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> </p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mba2012-01-13-16/rawdata/</p>12jan13a_motB_0031.st,  Tilt Series (Pixel Size 0.774 nm), 743.2 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mba2012-01-13-16/rawdata/12jan13a_motB_0031.st"
        > <i class="download icon"></i> Download </a></p>

        12jan13a_motB_0031.rec,  Reconstruction (Pixel Size 0.78 nm), 78.0 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mba2012-01-13-16/3dimage_22279/12jan13a_motB_0031.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/fn2ea-65c42
title: Campylobacter jejuni

description: Session notes: High magnification tomograms of whole WT Campylobacter cells. Tilt series notes: WT Campylobacter Tomogram notes: WBP reconstruction
description: <strong>Tilt Series Date:</strong> 2011-02-16</p>
<strong>Data Taken By:</strong> Morgan Beeby</p>
<strong>Species / Specimen:</strong> Campylobacter jejuni</p>
<strong>Strain:</strong> subsp. jejuni 81116</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: 5.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> imod</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mba2011-02-16-76/rawdata/</p>11feb16a_WTCampy_023.st,  Tilt Series (Pixel Size 0.512 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        11feb16a_WTCampy_023_bin1x_WBP.rec,  Reconstruction (Pixel Size 0.512 nm), 216.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.557qxh
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sparus aurata",
 "Country is Saudi Arabia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037834-250811113504898/datasets/export for details.
DOI: 10.15468/dl.awwsu3
title: Occurrence Download

description: A dataset containing 1283 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Packera indecora"
 ]
}

 The dataset includes 1283 records from 83 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037835-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/y3y02-xa465
title: Project: storage_granules

description: Session notes: THIS IS A MIXTURE OF DIFFERENT SETTINGS! Tilt series notes: Isolated granule Tomogram notes: One granule
description: <strong>Tilt Series Date:</strong> 2009-04-07</p>
<strong>Data Taken By:</strong> Morgan Beeby</p>
<strong>Species / Specimen:</strong> Cupriavidus necator</p>
<strong>Strain:</strong> H16</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-61.0°, 61.0°), step: 1°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -12.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> imod</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mba2009-04-07-10/rawdata/</p>09apr07a_grid3_017.st,  Tilt Series (Pixel Size 0.95 nm), 989.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09apr07a_grid3_017.rec,  Reconstruction (Pixel Size 1.9 nm), 31.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/82276-dyw57
title: Campylobacter jejuni

description: Session notes: Campy cjj0413, filtered 0.28,0.02 after binning to pixel size 1.56 nm (so, ~5.5nm cutoff) Tilt series notes:  Tomogram notes:
description: <strong>Tilt Series Date:</strong> 2012-01-12</p>
<strong>Data Taken By:</strong> Morgan Beeby</p>
<strong>Species / Specimen:</strong> Campylobacter jejuni</p>
<strong>Strain:</strong> subsp. jejuni 81116</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-66.0°, 66.0°), step: 1.5°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: 15.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> </p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mba2012-01-12-17/rawdata/</p>12jan12a_cjj0413_0020.st,  Tilt Series (Pixel Size 0.774 nm), 743.2 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mba2012-01-12-17/rawdata/12jan12a_cjj0413_0020.st"
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        12jan12a_cjj0413_0020.rec,  Reconstruction (Pixel Size 0.78 nm), 75.8 MB  
        
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DOI: 10.22002/g7xtz-a1w95
title: Campylobacter jejuni

description: Session notes: flgP deletion Campy mutants Tilt series notes:  Tomogram notes:
description: <strong>Tilt Series Date:</strong> 2011-08-10</p>
<strong>Data Taken By:</strong> Morgan Beeby</p>
<strong>Species / Specimen:</strong> Campylobacter jejuni</p>
<strong>Strain:</strong> subsp. jejuni 81116</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: -1°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: 5.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> </p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mba2011-08-10-35/rawdata/</p>11aug10a_flgP_0045.mrc,  Tilt Series (Pixel Size 0.512 nm), 1.1 GB  
        
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        11aug10a_flgP_0045_bin2x_SIRT_trim.rec,  Reconstruction (Pixel Size 1.024 nm), 24.6 MB  
        
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