cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/w9v4p-gfr21
title: Wild type control

description: Raw data files of Wild type control
description: <strong>Tilt Series Date:</strong> 2009-08-01</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: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 200.0 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, PEACH</p>
<strong>Collaborators and Roles:</strong> Experiments were done by Zhuo Li.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Exponential phase NA1000 cells.</p>
<strong>Sample Preparation:</strong> 10 nm gold </p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-08-01-8/rawdata/</p>09aug01a_noaddctl1_008.mrc,  Tilt Series (Pixel Size 1.2 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09aug01a_noaddctl1_008_part.rec,  Reconstruction (Pixel Size 2.4 nm), 367.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/72b15-qey42
title: Hyphomonas EB session21 34KX

description: high-order DNA, H-NS, nucleoid, asymmetric cell division
description: <strong>Tilt Series Date:</strong> 2009-07-14</p>
<strong>Data Taken By:</strong> Jian Shi</p>
<strong>Species / Specimen:</strong> Hyphomonas neptunium</p>
<strong>Strain:</strong> ATCC 15444</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 130.0 eV/Å²,  defocus: -7.0 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> Cultured by Jian; data collected by Jian; processed by Jian</p>
<strong>Purification / Growth Conditions / Treatment:</strong> exponential phase in PYE media, EB 0.02mg/ml overnight 4degree...</p>
<strong>Sample Preparation:</strong> QF grid, 10nm gold, 100% humidity...</p>
  jsa2009-07-14-47_slicer8894.jpg: Hyphomonas neptunium .  DNA supercoil?
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/jsa2009-07-14-47/rawdata/</p>09jul14a_b200c_047.mrc,  Tilt Series (Pixel Size 0.632 nm), 536.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09jul14a_b200c_047_full.rec,  Reconstruction (Pixel Size 1.264 nm), 367.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/wr2qc-gsk51
title: Pva 121509 MP43

description: Prosthecobacter vanneervenii, 10feb07a_MP43_Pva_stat54h_013,
description: <strong>Tilt Series Date:</strong> 2010-02-07</p>
<strong>Data Taken By:</strong> Martin Pilhofer</p>
<strong>Species / Specimen:</strong> Prosthecobacter vanneervenii</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>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> raptor</p>
<strong>Collaborators and Roles:</strong> cultured by Martin Pilhofer; data collected by Martin Pilhofer; processed by Martin Pilhofer</p>
<strong>Sample Preparation:</strong> quantifoil grid, 10nm gold, 100% humidity, blotting 1/-2/2/0/1/4/200</p>
  mpa2010-02-07-30_slicer7841.jpg: Prosthecobacter vanneervenii .  periplasmic filament mpa2010-02-07-30_slicer7845.jpg: Prosthecobacter vanneervenii .  filament
description: Files available via S3 at ps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mpa2010-02-07-30/rawdata/</p>10feb07a_MP43_Pva_stat54h_013.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        10feb07a_MP43_Pva_stat54h_013_full.rec,  Reconstruction (Pixel Size 1.9 nm), 838.9 MB  
        
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DOI: 10.15468/dl.63evqt
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Crataegus maximowiczii",
 "Country is Armenia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002249-250827131500795/datasets/export for details.
DOI: 10.22002/8h3yz-jg520
title: A. longum grown on rhamnose

description: Raw data files of A. longum grown on rhamnose
description: <strong>Tilt Series Date:</strong> 2009-02-20</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Acetonema longum</p>
<strong>Strain:</strong> None</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (60.0°, 60.0°), step: °, constant angular increment, dosage: 200.0 eV/Å²,  defocus: 10.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> webload</p>
<strong>Processing Software Used:</strong> IMOD</p>
<strong>Collaborators and Roles:</strong> Eric Matson grew the cells</p>
<strong>Purification / Growth Conditions / Treatment:</strong> anaerobic, on rhamnose</p>
<strong>Sample Preparation:</strong> quantifoil grid, 20nm gold, 100% humidity</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2009-02-20-8/rawdata/</p>carboxy14.mrc,  Tilt Series (Pixel Size 0.961 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        carboxy14_full.rec,  Reconstruction (Pixel Size 1.9 nm), 346.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.ecvxpy
title: Occurrence Download

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

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002250-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.96de6a
title: Occurrence Download

description: A dataset containing 601 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Crataegus maximowiczii",
 "Country is Russian Federation",
 "HasCoordinate is true"
 ]
}

 The dataset includes 601 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002251-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/q62jn-g5y57
title: CB15N w/ methanol control

description: Raw data files of CB15N w/ methanol control
description: <strong>Tilt Series Date:</strong> 2009-10-10</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: 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> Experiments done by ZL.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Exponential phase in PYE</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/zla2009-10-10-77/rawdata/</p>09oct10b_WTCCmet_077.mrc,  Tilt Series (Pixel Size 1.192 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09oct10b_WTCCmet_077_full.rec,  Reconstruction (Pixel Size 2.384 nm), 471.9 MB  
        
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DOI: 10.22002/7814x-rn759
title: Hyphomonas session14 27.5KX

description: high-order DNA, H-NS, nucleoid, asymmetric cell division
description: <strong>Tilt Series Date:</strong> 2009-05-22</p>
<strong>Data Taken By:</strong> Jian Shi</p>
<strong>Species / Specimen:</strong> Hyphomonas neptunium</p>
<strong>Strain:</strong> ATCC 15444</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 130.0 eV/Å²,  defocus: -7.0 μm,  magnification: 0x. </p>
<strong>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> imod</p>
<strong>Collaborators and Roles:</strong> Cultured by Jian; data collected by Jian; processed by Jian</p>
<strong>Purification / Growth Conditions / Treatment:</strong> exponential phase in PYE media, overnight at 4degree...</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/jsa2009-05-22-41/rawdata/</p>09may22b_bx22gr1_016.mrc,  Tilt Series (Pixel Size 0.774 nm), 520.1 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09may22b_bx22gr1_016_1k.rec,  Reconstruction (Pixel Size 1.548 nm), 45.1 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.5281/zenodo.16974119
title: Socio-demographic factors associated with the frequency of self-medication in university students in Lima

description: This database contains information on sociodemographic factors associated with the frequency of self-medication among university students in Lima.
DOI: 10.22002/m80nq-ga091
title: Pdb 020209 407

description: Prosthecobacter debontii, 09feb08c__Pde_grid_020209_407_w1_017,
description: <strong>Tilt Series Date:</strong> 2009-02-08</p>
<strong>Data Taken By:</strong> Martin Pilhofer</p>
<strong>Species / Specimen:</strong> Prosthecobacter debontii</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>Acquisition Software:</strong> Leginon</p>
<strong>Upload Method:</strong> rundir</p>
<strong>Processing Software Used:</strong> imod</p>
<strong>Collaborators and Roles:</strong> cultured by Martin Pilhofer; data collected by Martin Pilhofer; processed by Martin Pilhofer</p>
<strong>Sample Preparation:</strong> quantifoil grid, 10nm gold, 100% humidity, blotting 1/-2/2/0/1/4/200</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mpa2009-02-08-24/rawdata/</p>09feb08c__Pde_grid_020209_407_w1_017.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09feb08c__Pde_grid_020209_407_w1_017.rec,  Reconstruction (Pixel Size 1.9 nm), 201.3 MB  
        
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DOI: 10.5281/zenodo.16974118
title: Socio-demographic factors associated with the frequency of self-medication in university students in Lima

description: This database contains information on sociodemographic factors associated with the frequency of self-medication among university students in Lima.
DOI: 10.15468/dl.j6pqd7
title: Occurrence Download

description: A dataset containing 2653098 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Elasmobranchii"
 ]
}

 The dataset includes 2653098 records from 1586 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002210-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/dzvq6-ycd15
title: JV9082_Janelia42k

description: DotF-sfGFP fusion
description: <strong>Tilt Series Date:</strong> 2018-08-29</p>
<strong>Data Taken By:</strong> Debnath Ghosal</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: 3.0°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -7.0 μm,  magnification: 42000x. </p>
<strong>Microscope:</strong> Janelia Titan</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> Strain sent to us by Joseph P. Vogel, Washington University School of Medicine. Data collected and processed by Debnath Ghosal. Janelia Krios.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in AYE liquid culture with following supplements: ferric nitrate, cysteine hydrochloride and thymidine.</p>
<strong>Sample Preparation:</strong> 6 grids were frozen for the JV9082 strain (2x concentrated culture); Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 4.5 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2018-08-29-35/rawdata/</p>JV9082_201808290018.mrc,  Tilt Series (Pixel Size 0.26 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        JV9082_201808290018_full.rec,  Reconstruction (Pixel Size 1.04 nm), 445.4 MB  
        
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DOI: 10.22002/xwrhk-bd870
title: P_aeruginosa_PA14_DfliF_Krios

description: Raw data files of P_aeruginosa_PA14_DfliF_Krios
description: <strong>Tilt Series Date:</strong> 2018-09-29</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Pseudomonas aeruginosa</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (50.0°, -50.0°), step: 2°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -9.0 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> I (mohammed) obtained the cells from Shannon Park (Dianne Newman lab). The cells are available in their library of Pseudomonas aeruginosa PA14.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> I inoculated one colony from an LB agar plate and grew the cells overnight in LB with 100 ug/ml of Gentamycin. Then I concentrated the cells three times and mixed them with gold nanoparticles and added 3 ul on to thick carbon R2 grids and blotted them and plunge froze them (force either 6 or 3, time either 3 or 2 seconds respectively, drain time 1 second).</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-09-29-42/rawdata/</p>Pseudomonas_DfliF40.mrc,  Tilt Series (Pixel Size 0.53 nm), 1.7 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        Pseudomonas_DfliF40_full.rec,  Reconstruction (Pixel Size 2.12 nm), 445.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.6084/m9.figshare.25237723
title: VGLL4 KO chondrocyte differentiation difference genes

description: We extracted articular chondrogenic progenitor cells from <i>Vgll4</i><sup><em>-/-</em></sup> mice and littermate control mice, obtained RNA from <i>Control</i> and <i>Vgll4</i><sup><em>-/-</em></sup> mice KO cells, and performed transcriptome sequencing (fold change greater than 1.5, p-value less than 0.05). Data were analyzed on the Majorbio Cloud Platform (www.majorbio.com) free online platform.
DOI: 10.6084/m9.figshare.25237723.v1
title: VGLL4 KO chondrocyte differentiation difference genes

description: We extracted articular chondrogenic progenitor cells from <i>Vgll4</i><sup><em>-/-</em></sup> mice and littermate control mice, obtained RNA from <i>Control</i> and <i>Vgll4</i><sup><em>-/-</em></sup> mice KO cells, and performed transcriptome sequencing (fold change greater than 1.5, p-value less than 0.05). Data were analyzed on the Majorbio Cloud Platform (www.majorbio.com) free online platform.
DOI: 10.15468/dl.z6dwqh
title: Occurrence Download

description: A dataset containing 81 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vitreorana antisthenesi"
 ]
}

 The dataset includes 81 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006026-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/ncm0v-wf055
title: Ecoli_Cojugation

description: These are donor E coli cells (ANB35) and recipient Ecoli cells (ANB24). These are the same  .  cells described in the Science paper (Direct visualization of horizontal gene transfer). The .  cells were mixed on the grid and then plunge frozen and imaged with cryo-ET without CLEM. .  Targets were imaged with cryo-ET randomly.
description: <strong>Tilt Series Date:</strong> 2019-02-28</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> ANB35, Hfr3000 mrfp1</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-50.0°, 50.0°), step: 1°, constant angular increment, dosage: 130.0 eV/Å²,  defocus: -10.0 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> The cells were sent to the Jensen lab from the lab of Ariel Lindner in Paris. These are the same . cells used in their Science paper (direct visualization of horizontal gene transfer).</p>
<strong>Purification / Growth Conditions / Treatment:</strong> ANB 35 were grown in LB while ANB24 (Recipient) in M9. I followed the same protocol . described in the Science paper described above.</p>
<strong>Sample Preparation:</strong> The donor and recipient cells were mixed on the EM grid, incubated in the vitrobot chamber with . 100% humidity and then blotted and plunge frozen.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2019-02-28-19/rawdata/</p>Ecoli_conjugation17.mrc,  Tilt Series (Pixel Size 0.541 nm), 2.9 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        Ecoli_conjugation17.mrc.mdoc,  50.9 kB  
        
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