cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/7t7f7-4pd53
title: C. crescentus NA1000 Tad pilus

description: C. crescentus NA1000 Tad pilus project. The goad is to get an STA of the Tad pilus secretion system.
description: <strong>Tilt Series Date:</strong> 2019-08-17</p>
<strong>Data Taken By:</strong> Steven Wang</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 3°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -6.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> None</p>
<strong>Collaborators and Roles:</strong> Patrick Viollier and Lujia Zhang</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Swarmer cells purified using Percoll (colloidal silica). Cultured using M2G media.</p>
<strong>Sample Preparation:</strong> 10 nm gold beads. Blotting force 4, blotting time 4, draining time 1. Quantifoil copper grids.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/swy2019-08-17-41/rawdata/</p>caulobacter_na1000_wt_042_af.mrc,  Tilt Series (Pixel Size 0.336 nm), 3.9 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        caulobacter_na1000_wt_042_af.mrc.mdoc,  813.0 B  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.n2gzey
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Liocichla omeiensis",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 20 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045232-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.824urf
title: Occurrence Download

description: A dataset containing 1076 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Marphysa sanguinea"
 ]
}

 The dataset includes 1076 records from 92 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045231-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/dw4t3-5ea42
title: Shewanella oneidensis dFlgH

description: Raw data files of Shewanella oneidensis dFlgH
description: <strong>Tilt Series Date:</strong> 2018-05-27</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Shewanella oneidensis</p>
<strong>Strain:</strong> MR-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: -8.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> RAPTOR</p>
<strong>Collaborators and Roles:</strong> Jeff Granlick (Uni. of Minnesota) supplied the mutant cells.</p>
<strong>Sample Preparation:</strong> Samples were prepared from overnight LB culture</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-05-27-37/rawdata/</p>tilt43.mrc,  Tilt Series (Pixel Size 0.57 nm), 2.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-05-27-37/rawdata/tilt43.mrc"
        > <i class="download icon"></i> Download </a></p>

        tilt43_full.rec,  Reconstruction (Pixel Size 2.28 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-05-27-37/3dimage_93366/tilt43_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/w0gws-vqf90
title: Legionella delta DotOB

description: DotF-GFP background
description: <strong>Tilt Series Date:</strong> 2019-02-13</p>
<strong>Data Taken By:</strong> Yuxi Liu</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -5.0 μm,  magnification: 53000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Joseph Vogel</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Early stationary phase</p>
<strong>Sample Preparation:</strong> 10 nm gold beads, broad vitrobot, R2/2 200 mesh copper quantifoil grids</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-02-13-37/rawdata/</p>20190213_deltaOB_26.mrc,  Tilt Series (Pixel Size 0.27 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-02-13-37/rawdata/20190213_deltaOB_26.mrc"
        > <i class="download icon"></i> Download </a></p>

        20190213_deltaOB_26_part61_27.rec,  Reconstruction (Pixel Size 1.08 nm), 445.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/kwa2y-6xf64
title: Nitrosocaldus yellowstonensis

description: Raw data files of Nitrosocaldus yellowstonensis
description: <strong>Tilt Series Date:</strong> 2019-07-15</p>
<strong>Data Taken By:</strong> Yuxi Liu</p>
<strong>Species / Specimen:</strong> Candidatus Nitrosocaldus yellowstonensis</p>
<strong>Strain:</strong> HL72</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -5.0 μm,  magnification: 33000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> None</p>
<strong>Collaborators and Roles:</strong> Jose R De La Torre and students, SF state, culture growth</p>
<strong>Purification / Growth Conditions / Treatment:</strong> stationary phase</p>
<strong>Sample Preparation:</strong> Quantifoil R0.6/1 copper 300 mesh, 10nm gold, 22deg C, 100% humidity, manual blotting</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-07-15-9/rawdata/</p>20190715_Ny_stationary_14.mrc,  Tilt Series (Pixel Size 0.2678 nm), 2.8 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-07-15-9/rawdata/20190715_Ny_stationary_14.mrc"
        > <i class="download icon"></i> Download </a></p>

        20190715_Ny_stationary_14.mrc.mdoc,  31.2 kB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/hpx02-nyk87
title: P. gingivalis PorV mutant

description: Raw data files of P. gingivalis PorV mutant
description: <strong>Tilt Series Date:</strong> 2019-01-23</p>
<strong>Data Taken By:</strong> Georges Chreifi</p>
<strong>Species / Specimen:</strong> Porphyromonas gingivalis</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 3°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -6.0 μm,  magnification: 42000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Eric Reynolds</p>
<strong>Sample Preparation:</strong> Liquid culture. Harvested and plunge-frozen in late phase.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2019-01-23-19/rawdata/</p>2-PorV-26.mrc,  Tilt Series (Pixel Size 0.3519 nm), 1.2 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2019-01-23-19/rawdata/2-PorV-26.mrc"
        > <i class="download icon"></i> Download </a></p>

        2-PorV-26_full.rec,  Reconstruction (Pixel Size 1.4076 nm), 267.3 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.knk3zm
title: Occurrence Download

description: A dataset containing 196 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nitraria tangutorum"
 ]
}

 The dataset includes 196 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045233-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/9kae7-8k333
title: JV9264

description: Raw data files of JV9264
description: <strong>Tilt Series Date:</strong> 2018-09-06</p>
<strong>Data Taken By:</strong> Jun Zhang</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-54.0°, 54.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -7.0 μm,  magnification: 41000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Joseph</p>
<strong>Purification / Growth Conditions / Treatment:</strong> 37 degree and OD 2.5-3.0</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/jza2018-09-06-76/rawdata/</p>JV9264_B168.mrc,  Tilt Series (Pixel Size 0.2654 nm), 1.6 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/jza2018-09-06-76/rawdata/JV9264_B168.mrc"
        > <i class="download icon"></i> Download </a></p>

        JV9264_B168_part55_2.rec,  Reconstruction (Pixel Size 1.0616 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/jza2018-09-06-76/3dimage_97924/JV9264_B168_part55_2.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/h57vh-kxt33
title: Caulobacter crescentus

description: Raw data files of Caulobacter crescentus
description: <strong>Tilt Series Date:</strong> 2018-10-05</p>
<strong>Data Taken By:</strong> Lujia Zhang</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 252.8 eV/Å²,  defocus: -10.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> For the research of pilus, Del E from Partick</p>
<strong>Purification / Growth Conditions / Treatment:</strong> swarmer cell, PVP</p>
<strong>Sample Preparation:</strong> force 4, time 6, humidity 100%, temp. 22</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-05-70/rawdata/</p>targ70.mrc,  Tilt Series (Pixel Size 0.3712 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-05-70/rawdata/targ70.mrc"
        > <i class="download icon"></i> Download </a></p>

        targ70_full.rec,  Reconstruction (Pixel Size 1.4848 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-05-70/3dimage_99436/targ70_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/4nfyb-0dz58
title: gh9-3_sq2_cell3

description: GH9-3 ; sq2 ; 1.2s
description: <strong>Tilt Series Date:</strong> 2018-10-09</p>
<strong>Data Taken By:</strong> William Nicolas</p>
<strong>Species / Specimen:</strong> Gluconacetobacter hansenii</p>
<strong>Strain:</strong> ATCC 23769</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 119.0 eV/Å²,  defocus: -8.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> Undefined</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> RAPTOR</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Overnight 6mL culture - Shaken, centrif 2500rcf 10min 30C, resuspended in 0.5mL SH medium.</p>
<strong>Sample Preparation:</strong> +13min post-prep' - 30C, 100% hum Manual backblot 5s FM layed on grid prior and backblotted to dry excess liquid.</p>
description: Files available via S3 at ttps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/wnj2018-10-09-10/rawdata/</p>gh9-3_sq2_cell3.mrc,  Tilt Series (Pixel Size 0.48 nm), 1.7 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        gh9-3_sq2_cell3_full.rec,  Reconstruction (Pixel Size 0.96 nm), 2.8 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/wnj2018-10-09-10/3dimage_97569/gh9-3_sq2_cell3_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.atk792
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Simpsonichthys margaritatus)",
 "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 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045235-250811113504898/datasets/export for details.
DOI: 10.22002/g4nfj-adz37
title: C. crescentus NA1000 Tad pilus

description: C. crescentus NA1000 Tad pilus project. The goad is to get an STA of the Tad pilus secretion system.
description: <strong>Tilt Series Date:</strong> 2019-08-17</p>
<strong>Data Taken By:</strong> Steven Wang</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 3°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -6.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> None</p>
<strong>Collaborators and Roles:</strong> Patrick Viollier and Lujia Zhang</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Swarmer cells purified using Percoll (colloidal silica). Cultured using M2G media.</p>
<strong>Sample Preparation:</strong> 10 nm gold beads. Blotting force 4, blotting time 4, draining time 1. Quantifoil copper grids.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/swy2019-08-17-118/rawdata/</p>caulobacter_na1000_wt_119_af.mrc,  Tilt Series (Pixel Size 0.336 nm), 3.9 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        caulobacter_na1000_wt_119_af.mrc.mdoc,  814.0 B  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.svnrwe
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eschscholzia californica",
 "Country is Greece",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045237-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/p3a5p-q4t19
title: Caulobacter crescentus

description: Raw data files of Caulobacter crescentus
description: <strong>Tilt Series Date:</strong> 2018-10-20</p>
<strong>Data Taken By:</strong> Lujia Zhang</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</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: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> For the research of pilus, WT</p>
<strong>Purification / Growth Conditions / Treatment:</strong> swarmer cell, PVP</p>
<strong>Sample Preparation:</strong> force 4, time 6, humidity 100%, temp. 22</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-20-40/rawdata/</p>targ66.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.5 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-20-40/rawdata/targ66.mrc"
        > <i class="download icon"></i> Download </a></p>

        targ66_part123_4.rec,  Reconstruction (Pixel Size 1.56 nm), 445.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/16b0t-kkh31
title: C. crescentus NA1000 Tad pilus

description: C. crescentus NA1000 Tad pilus project. The goad is to get an STA of the Tad pilus secretion system.
description: <strong>Tilt Series Date:</strong> 2019-08-17</p>
<strong>Data Taken By:</strong> Steven Wang</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 3°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -6.0 μm,  magnification: 26000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> Serial EM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> None</p>
<strong>Collaborators and Roles:</strong> Patrick Viollier and Lujia Zhang</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Swarmer cells purified using Percoll (colloidal silica). Cultured using M2G media.</p>
<strong>Sample Preparation:</strong> 10 nm gold beads. Blotting force 4, blotting time 4, draining time 1. Quantifoil copper grids.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/swy2019-08-17-70/rawdata/</p>caulobacter_na1000_wt_071_af.mrc,  Tilt Series (Pixel Size 0.336 nm), 3.9 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        caulobacter_na1000_wt_071_af.mrc.mdoc,  813.0 B  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/qgrw8-ydq55
title: Caulobacter crescentus

description: Raw data files of Caulobacter crescentus
description: <strong>Tilt Series Date:</strong> 2018-07-10</p>
<strong>Data Taken By:</strong> Lujia Zhang</p>
<strong>Species / Specimen:</strong> Caulobacter crescentus</p>
<strong>Strain:</strong> NA1000</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: -6.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> For the research of pilus, over-express, from Partick, 4331</p>
<strong>Purification / Growth Conditions / Treatment:</strong> swarmer cell, PVP</p>
<strong>Sample Preparation:</strong> force 4, time 6, humidity 100%, temp. 22</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-07-10-26/rawdata/</p>targ35.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.6 GB  
        
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        targ35_part128_2.rec,  Reconstruction (Pixel Size 1.56 nm), 445.4 MB  
        
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