cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/ty1nx-3w565
title: RodZ oe

description: Raw data files of RodZ oe
description: <strong>Tilt Series Date:</strong> 2009-03-10</p>
<strong>Data Taken By:</strong> Zhuo Li</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-63.0°, 63.0°), step: 1°, constant angular increment, dosage: 190.0 eV/Å²,  defocus: -12.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> webload</p>
<strong>Processing Software Used:</strong> RAPTOR, IMOD</p>
<strong>Collaborators and Roles:</strong> Strains were provided by Anisah Alyahya (Jacobs-Wagner lab). Data collected and processed by Zhuo Li.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> A plasmid pJS14pxylrodZ was electroporated into CB15N. The cells were then grown in PYE plates containing antibiotics. </p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-03-10-10/rawdata/</p>09mar10a_bx346_pos3_010.mrc,  Tilt Series (Pixel Size 0.632 nm), 1.1 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-03-10-10/rawdata/09mar10a_bx346_pos3_010.mrc"
        > <i class="download icon"></i> Download </a></p>

        09mar10a_bx346_pos3_010_part.rec,  Reconstruction (Pixel Size 1.264 nm), 629.1 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        zap009.png,  263.3 kB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-03-10-10/file_2528/zap009.png"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/vzqhx-e3642
title: Methanospirillum hungataei

description: Methanospirillum hungataei
description: <strong>Tilt Series Date:</strong> 2014-09-04</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Methanospirillum hungatei</p>
<strong>Strain:</strong> </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> SIRT</p>
  aba2014-09-04-1_slicer10461.jpg: chemoreceptor array Methanospirillum aba2014-09-04-1_slicer10462.jpg: filament bundle close to chemoreceptor array Methanospirillum aba2014-09-04-1_slicer10463.jpg: top view chemoreceptor array Methanospirillum
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2014-09-04-1/rawdata/</p>MS2cell0001.mrc,  Tilt Series (Pixel Size 0.64 nm), 861.6 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2014-09-04-1/rawdata/MS2cell0001.mrc"
        > <i class="download icon"></i> Download </a></p>

        MS2cell0001.rec,  Reconstruction (Pixel Size 2.56 nm), 354.8 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2014-09-04-1/3dimage_46117/MS2cell0001.rec"
        > <i class="download icon"></i> Download </a></p>

        MS2cell0001SIRTrot.rec,  Reconstruction (Pixel Size 0.0 nm), 10.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.pj9abx
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Rita chrysea)",
 "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 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033150-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/ddkmd-pen60
title: t-ADL

description: Raw data files of t-ADL
description: <strong>Tilt Series Date:</strong> 2009-03-01</p>
<strong>Data Taken By:</strong> Zhuo Li</p>
<strong>Species / Specimen:</strong> Halohasta litchfieldiae</p>
<strong>Strain:</strong> tADL</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 50.0 eV/Å²,  defocus: 30.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> webload</p>
<strong>Processing Software Used:</strong> RAPTOR</p>
<strong>Collaborators and Roles:</strong> Cells provided by Mike Dyall-Smith; Data collected by Zhuo Li. </p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown on the grids.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-03-01-31/rawdata/</p>09mar01b_bx98_tADL_031.mrc,  Tilt Series (Pixel Size 0.95 nm), 687.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09mar01b_bx98_tADL_031.ali,  172.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09mar01b_bx98_tADL_031_full.rec,  Reconstruction (Pixel Size 1.9 nm), 524.3 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/hfvf1-x4c16
title: 1003_deletion w/ iron

description: Raw data files of 1003_deletion w/ iron
description: <strong>Tilt Series Date:</strong> 2009-11-23</p>
<strong>Data Taken By:</strong> Zhuo Li</p>
<strong>Species / Specimen:</strong> Magnetospirillum magneticum</p>
<strong>Strain:</strong> AMB-1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-63.0°, 63.0°), step: 1°, constant angular increment, dosage: 110.0 eV/Å²,  defocus: -16.0 μm,  magnification: 18000x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> webload</p>
<strong>Processing Software Used:</strong> RAPTOR, Peach</p>
<strong>Collaborators and Roles:</strong> Cells provided by Arash Komeili; data collected by ZL.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> (Probably) stationary phase </p>
<strong>Sample Preparation:</strong> Quantifoil R2/2, R2/1, 10nm gold, 100% humidity</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-11-23-2/rawdata/</p>09nov23a_d1003wFe1_002.mrc,  Tilt Series (Pixel Size 1.192 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09nov23a_d1003wFe1_002_full.rec,  Reconstruction (Pixel Size 2.384 nm), 471.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09nov23a_d1003wFe1_002.tif,  1.2 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/0zf1y-yys24
title: caulobacter_7dgrowth_contaminate

description: This batch of caulobacter with 7days growth was contaminated with an unknown bacterium and bacteriophages
description: <strong>Tilt Series Date:</strong> 2013-11-18</p>
<strong>Data Taken By:</strong> Poorna Subramanian</p>
<strong>Species / Specimen:</strong> Unspecified</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: 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>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2013-11-18-5/rawdata/</p>7days_atlas20002.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/psa2013-11-18-5/rawdata/7days_atlas20002.mrc"
        > <i class="download icon"></i> Download </a></p>

        7days_atlas20002.rec,  Reconstruction (Pixel Size 1.92 nm), 890.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2013-11-18-5/3dimage_34484/7days_atlas20002.rec"
        > <i class="download icon"></i> Download </a></p>

        psa2013-11-18-5_slicer16279.png,  An example of a starved cell with no clear evidence of a ribosome exclusion zone.  (Nearly all the other pictures taken this day have one.  I just wanted to find the fraction of cells which have them.  Don't know if this is C. crescentus.) .  -andrew, 421.1 kB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/Caps/psa2013-11-18-5_slicer16279.png"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.a7y75z
title: Occurrence Download

description: A dataset containing 31424 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Aster amellus"
 ]
}

 The dataset includes 31424 records from 358 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033147-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.urqebt
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rapana venosa",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "HasCoordinate is true"
 ]
}

 The dataset includes 4 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0033151-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/749y9-apf36
title: t-ADL

description: Raw data files of t-ADL
description: <strong>Tilt Series Date:</strong> 2009-03-01</p>
<strong>Data Taken By:</strong> Zhuo Li</p>
<strong>Species / Specimen:</strong> Halohasta litchfieldiae</p>
<strong>Strain:</strong> tADL</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 50.0 eV/Å²,  defocus: 30.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> webload</p>
<strong>Processing Software Used:</strong> RAPTOR</p>
<strong>Collaborators and Roles:</strong> Cells provided by Mike Dyall-Smith; Data collected by Zhuo Li. </p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown on the grids.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-03-01-9/rawdata/</p>09mar01b_bx98_tADL_009.mrc,  Tilt Series (Pixel Size 0.95 nm), 687.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09mar01b_bx98_tADL_009.ali,  169.9 MB  
        
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        09mar01b_bx98_tADL_009_part.rec,  Reconstruction (Pixel Size 1.9 nm), 524.3 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/ge7ba-qde40
title: Bsubtilis_3267

description: Bsubtilis_Alp7A
description: <strong>Tilt Series Date:</strong> 2011-12-07</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Bacillus subtilis </p>
<strong>Strain:</strong> AD3267, ponA null, Alp7A-GFP</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 Joe 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/etl2011-12-07-37/rawdata/</p>3267c0004.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/etl2011-12-07-37/rawdata/3267c0004.mrc"
        > <i class="download icon"></i> Download </a></p>

        3267c0004_full.rec,  Reconstruction (Pixel Size 1.9 nm), 877.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2011-12-07-37/3dimage_25687/3267c0004_full.rec"
        > <i class="download icon"></i> Download </a></p>

        SIRT.rec,  Reconstruction (Pixel Size 1.9 nm), 3.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2011-12-07-37/3dimage_25688/SIRT.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/qkm2b-pxs21
title: MP III4 27.5KX

description: Mycoplasma pneumonia III4 mutant, attachment organelle
description: <strong>Tilt Series Date:</strong> 2010-04-01</p>
<strong>Data Taken By:</strong> Jian Shi</p>
<strong>Species / Specimen:</strong> Mycoplasma pneumoniae</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -10.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> raptor</p>
<strong>Collaborators and Roles:</strong> data collected by Jian; processed by Jian</p>
<strong>Sample Preparation:</strong> QF grid, 10nm gold, 100% humidity...</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/jsa2010-04-01-17/rawdata/</p>10apr01a_B718a_017.mrc,  Tilt Series (Pixel Size 0.774 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        10apr01a_B718a_017_full.rec,  Reconstruction (Pixel Size 1.548 nm), 314.6 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        10apr01a_B718a_017_SIRT.rec,  Reconstruction (Pixel Size 0.0 nm), 524.3 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/6g11y-db747
title: MP wt 27.5KX

description: Mycoplasma pneumonia wt mutant, attachment organelle in cell
description: <strong>Tilt Series Date:</strong> 2010-02-21</p>
<strong>Data Taken By:</strong> Jian Shi</p>
<strong>Species / Specimen:</strong> Mycoplasma pneumoniae</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -10.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> raptor</p>
<strong>Collaborators and Roles:</strong> data collected by Jian; processed by Jian</p>
<strong>Sample Preparation:</strong> QF grid, 10nm gold, 100% humidity...</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/jsa2010-02-21-10/rawdata/</p>10feb21a_MP3a_010.mrc,  Tilt Series (Pixel Size 0.774 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        10feb21a_MP3a_010_full.rec,  Reconstruction (Pixel Size 1.548 nm), 419.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        10feb21a_MP3a_010_SIRT.rec,  Reconstruction (Pixel Size 0.0 nm), 524.3 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/10zxm-eax82
title: MP III4 27.5KX

description: Mycoplasma pneumonia III4 mutant, attachment organelle
description: <strong>Tilt Series Date:</strong> 2010-04-01</p>
<strong>Data Taken By:</strong> Jian Shi</p>
<strong>Species / Specimen:</strong> Mycoplasma pneumoniae</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -10.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> raptor</p>
<strong>Collaborators and Roles:</strong> data collected by Jian; processed by Jian</p>
<strong>Sample Preparation:</strong> QF grid, 10nm gold, 100% humidity...</p>
  jsa2010-04-01-1_slicer13261.jpg: Attachment Organelle
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/jsa2010-04-01-1/rawdata/</p>10apr01a_B718a_001.mrc,  Tilt Series (Pixel Size 0.774 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        10apr01a_B718a_001_part.rec,  Reconstruction (Pixel Size 1.548 nm), 314.6 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        10apr01a_B718a_001_SIRT.rec,  Reconstruction (Pixel Size 0.0 nm), 524.3 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/m3gvq-dgm36
title: Wild type w/o iron

description: Raw data files of Wild type w/o iron
description: <strong>Tilt Series Date:</strong> 2009-11-12</p>
<strong>Data Taken By:</strong> Zhuo Li</p>
<strong>Species / Specimen:</strong> Magnetospirillum magneticum</p>
<strong>Strain:</strong> AMB-1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-63.0°, 63.0°), step: 1°, constant angular increment, dosage: 110.0 eV/Å²,  defocus: -15.0 μm,  magnification: 18000x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> webload</p>
<strong>Processing Software Used:</strong> RAPTOR, Peach, IMOD</p>
<strong>Collaborators and Roles:</strong> Cells sent from Arash Komeili, data collected by ZL.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> (Could be) Stationary phase</p>
<strong>Sample Preparation:</strong> Quantifoil R2/1 or R2/2, 10nm gold, 100% humidity</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-11-12-59/rawdata/</p>09nov12a_wtnofe_059.mrc,  Tilt Series (Pixel Size 1.192 nm), 1.1 GB  
        
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        09nov12a_wtnofe_059_full.rec,  Reconstruction (Pixel Size 2.384 nm), 471.9 MB  
        
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        09nov12a_wtnofe_059.tif,  373.7 kB  
        
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