cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/1tf3y-5z083
title: Pseudomonas aeruginosa wild type

description: starved for 3h
description: <strong>Tilt Series Date:</strong> 2014-02-08</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Pseudomonas aeruginosa</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-50.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 200.0 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> reupload_downloaded</p>
<strong>Processing Software Used:</strong> IMOD</p>
<strong>Collaborators and Roles:</strong> Lisa Racki</p>
<strong>Purification / Growth Conditions / Treatment:</strong> starved for 3h</p>
<strong>Sample Preparation:</strong> Vitrobot</p>
  etl2014-02-08-4_slicer4496.jpg: granules
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-02-08-4/rawdata/</p>Paeruginosa_wt_t30004.mrc,  Tilt Series (Pixel Size 0.4 nm), 3.2 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-02-08-4/rawdata/Paeruginosa_wt_t30004.mrc"
        > <i class="download icon"></i> Download </a></p>

        Paeruginosa_wt_t30004_part111_12.rec,  Reconstruction (Pixel Size 0.0 nm), 356.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.hfg99d
title: Occurrence Download

description: A dataset containing 161 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Physocarpus opulifolius",
 "Country is Denmark",
 "HasCoordinate is true"
 ]
}

 The dataset includes 161 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002337-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/vwepx-8f518
title: Sulfolobus solfac.P2

description: Sulfolobus solfactaricus P2 cells- active culture fixed with 0.5% glutiraldehyde.
description: <strong>Tilt Series Date:</strong> 2014-02-20</p>
<strong>Data Taken By:</strong> Rasika Ramdasi</p>
<strong>Species / Specimen:</strong> Sulfolobus solfataricus </p>
<strong>Strain:</strong> P2</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-50.0°, 50.0°), 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> with Jamie Snyder from Montana</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Active culture fixed</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-02-20-13/rawdata/</p>atlas20009.mrc,  Tilt Series (Pixel Size 0.48 nm), 2.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-02-20-13/rawdata/atlas20009.mrc"
        > <i class="download icon"></i> Download </a></p>

        atlas20009_part101_44.rec,  Reconstruction (Pixel Size 1.92 nm), 623.6 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-02-20-13/3dimage_39264/atlas20009_part101_44.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/3ray9-g4q20
title: Agro_C58

description: Agro_liq_22C
description: <strong>Tilt Series Date:</strong> 2014-06-07</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/etl2014-06-07-7/rawdata/</p>c58_22C_liq_10003.mrc,  Tilt Series (Pixel Size 0.5 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        7_full.rec,  Reconstruction (Pixel Size 2.0 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-06-07-7/3dimage_56601/7_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.qh3twt
title: Occurrence Download

description: A dataset containing 211 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Physocarpus opulifolius",
 "Country is Estonia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 211 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002338-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/tbtkn-5gr46
title: E. Coli delta53

description: Mutant MreB with sfGFP in sandwich position. WT MreB is replaced at the original locus with this fusion.
description: <strong>Tilt Series Date:</strong> 2014-04-01</p>
<strong>Data Taken By:</strong> Matt Swulius</p>
<strong>Species / Specimen:</strong> Escherichia Coli </p>
<strong>Strain:</strong> delta53</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-64.0°, 64.0°), step: 1°, constant angular increment, dosage: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 26000x. </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> Josh Schaevitz</p>
<strong>Purification / Growth Conditions / Treatment:</strong> 37 celsius to OD 600 ~ 0.3</p>
<strong>Sample Preparation:</strong> Blotted manually from rear in vitrobot at 100% humidity</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mst2014-04-01-43/rawdata/</p>040114_delta53_0021.mrc,  Tilt Series (Pixel Size 0.42 nm), 3.6 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        040114_delta53_0021_part131_10.rec,  Reconstruction (Pixel Size 1.68 nm), 861.2 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.fqs6xq
title: Occurrence Download

description: A dataset containing 59636 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ginkgo biloba"
 ]
}

 The dataset includes 59636 records from 689 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002213-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/e46c4-v3j43
title: Bsubtilis_ponA_sacculi

description: Bsubtilis_sacculi_ponA
description: <strong>Tilt Series Date:</strong> 2012-02-11</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/etl2012-02-11-8/rawdata/</p>MJsacculi0013.mrc,  Tilt Series (Pixel Size 0.95 nm), 677.3 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2012-02-11-8/rawdata/MJsacculi0013.mrc"
        > <i class="download icon"></i> Download </a></p>

        MJsacculi0013_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/etl2012-02-11-8/3dimage_26208/MJsacculi0013_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/ezacy-a1c16
title: COS7 VPS4DN+pNLGFP

description: Cos7 cells transfected with VPS4DN (0.5 ug) and pNLGFP provirus construct (4 ug). Sample #C107
description: <strong>Tilt Series Date:</strong> 2012-01-14</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> VPS4DN construct provided by Wes Sundquist. 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 with lipofectamine</p>
<strong>Sample Preparation:</strong> manual blotting</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2012-01-14-11/3dimage_68959/</p>12jan14_C107_1_pNL_DN_AT2BT10004_full.rec,  Reconstruction (Pixel Size 2.0 nm), 722.6 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        12jan14_C107_1_pNL_DN_AT2BT10004.mrc,  Tilt Series (Pixel Size 0.5 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/qfb92-bx250
title: NR1769pKM101conjFM433

description: skinny ecoli conjugation with FM433 ecoli
description: <strong>Tilt Series Date:</strong> 2014-10-25</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> NR1769 pKM101</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: 18000x. </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> Christian Baron</p>
<strong>Purification / Growth Conditions / Treatment:</strong> cells were grown on a gold grid in a drop of 1:1 mix of bacteria for 30min</p>
<strong>Sample Preparation:</strong> Vitrobot</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-10-25-21/rawdata/</p>NRpKMplusFM433_conj1_18K0016.mrc,  Tilt Series (Pixel Size 0.63 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        NRpKMplusFM433_conj1_18K0016_full.rec,  Reconstruction (Pixel Size 0.0 nm), 980.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/956bq-mcr08
title: HeLa cells

description: Looking for ESCRT around midbodies
description: <strong>Tilt Series Date:</strong> 2014-11-26</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: (-60.0°, 60.0°), 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 provided by Doug Mckarty</p>
<strong>Sample Preparation:</strong> HeLa cells+ siRNA nup153+Thymidine 2mM for 14 h.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-11-26-47/rawdata/</p>midbody50011.mrc,  Tilt Series (Pixel Size 0.6 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2014-11-26-47/rawdata/midbody50011.mrc"
        > <i class="download icon"></i> Download </a></p>

        midbody50011_part121_1.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/rra2014-11-26-47/3dimage_48427/midbody50011_part121_1.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.byzbdk
title: Occurrence Download

description: A dataset containing 1775049 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Ulmus hollandica, Ulmus laevis, Ulmus minor, Ulmus parvifolia, Ulmus procera, Ulmus pumila, Ulva australis, Ulva lactuca, Ulva reticulata, Uraria lagopodioides, Uraria lagopodoides, Urena lobata, Urena procumbens, Urochloa glumaris, Urochloa panicoides, Urochloa trichopus, Urtica dioica, Urtica urens, Utricularia aurea, Utricularia gibba)",
 "BasisOfRecord is one of (Machine Observation, Human Observation, Observation)",
 "HasCoordinate is true",
 "Year is greater than or equal to 1990"
 ]
}

 The dataset includes 1775049 records from 4175 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002314-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z2su8b
title: Occurrence Download

description: A dataset containing 96 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Hydroides elegans",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Geometry POLYGON ((-6.6 29.26705, -6.6 50.94, 40.81373 50.94, 40.81373 29.26705, -6.6 29.26705))",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Observation, Material sample)"
 ]
}

 The dataset includes 96 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050140-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sk8n7f
title: Occurrence Download

description: A dataset listing the 4052342 species recorded in GBIF matching the query:
{
 "OccurrenceStatus" : [
 "is Present"
 ]
}

 The dataset's 4052342 records were derived from 75545 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050117-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.78wpka
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tetraogallus altaicus",
 "Country is Chinese Taipei",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0050141-250811113504898/datasets/export for details.
DOI: 10.15468/dl.vy7uzr
title: Occurrence Download

description: A dataset containing 42 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "Elevation 241.0-571.0m",
 "Geometry POLYGON((-73.64163 4.16979,-73.7201 4.132,-73.77152 4.11176,-73.80625 4.04063,-73.80625 3.96267,-73.75895 3.91137,-73.69314 3.87444,-73.60264 3.91548,-73.50803 3.96062,-73.38808 3.99855,-73.3346 4.12164,-73.37985 4.19959,-73.52176 4.2078,-73.64124 4.21276,-73.64163 4.16979))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Orchidaceae, Bromeliaceae)"
 ]
}

 The dataset includes 42 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000073-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h3mavm
title: Occurrence Download

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

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000074-250827131500795/datasets/export for details.
DOI: 10.22002/3mbwk-a7684
title: Hpylori_dFliF_FISE

description: These are H_pylori cells that are lacking FliP protein. In these cells, FliF protein was knocked out  .  to examine its relation to the hat-like complex.
description: <strong>Tilt Series Date:</strong> 2020-10-08</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Helicobacter pylori</p>
<strong>Strain:</strong> 26695</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 3°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: -8.0 μm,  magnification: 19500x. </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> The cells were prepared and sent by Carrie Schaffer from the university of Kentucky. The cells were grown at 37C with 5% CO2 on sheep blood agar plates for 2 days from a -80C. No growth was seen . on the plates after 24 hr therefore the plates were kept in the . incubator for another 24Hr.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> The samples were prepared with Vitrobot IV. Blotting conditions were either: blot force 6, blot . time 3, drain time 1 OR blot force -3, blot time 4, drain time 1, 100%  humidity. Cu grids. 10 nm . gold</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2020-10-08-308/rawdata/</p>Hpylori_DFliF_FISE_313.mrc,  Tilt Series (Pixel Size 0.452 nm), 1.9 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        Hpylori_DFliF_FISE_313_full.rec,  Reconstruction (Pixel Size 1.808 nm), 737.3 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/1c8wa-x3f10
title: mini cells

description: Mini cells (FtsA FtsZ over-expression)
description: <strong>Tilt Series Date:</strong> 2019-11-15</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: (-54.0°, 54.0°), step: 3°, 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> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain from Craig Roy lab</p>
<strong>Purification / Growth Conditions / Treatment:</strong> FtsA FtsZ over-expression induced by 0.1mM IPTG in liquid culture. O.D. reached 1.8 after ~40 hours. </p>
<strong>Sample Preparation:</strong> Concentrate 600uL of O.D. 1.8 cells, collect supernatant from 500Xg 2min spin, then concentrate again w/ 1000xg 5min spin. Resuspend pellet to 50uL as stock. Vitrobot set to 22 C, 100% humidity. Apply 4uL of 20X diluted stock, blot manually. Quantifoil R2/2 copper.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-11-15-55/rawdata/</p>20191115_Lpmini_74.mrc,  Tilt Series (Pixel Size 0.1339 nm), 7.0 GB  
        
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        20191115_Lpmini_74_part37_4.rec,  Reconstruction (Pixel Size 1.0712 nm), 1.0 GB  
        
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