cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/wq61d-25407
title: Hyphomonas session16 27.5KX

description: high-order DNA, H-NS, nucleoid, asymmetric cell division
description: <strong>Tilt Series Date:</strong> 2009-06-06</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: (-61.0°, 61.0°), step: 2°, 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> Cultured by Jian; data collected by Jian; processed by Jian</p>
<strong>Purification / Growth Conditions / Treatment:</strong> exponential phase in 2216 media, 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/jsa2009-06-06-1/rawdata/</p>09jun06a_bx823a_020.mrc,  Tilt Series (Pixel Size 0.774 nm), 520.1 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09jun06a_bx823a_020_part.rec,  Reconstruction (Pixel Size 1.548 nm), 419.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.gwsdkv
title: Occurrence Download

description: A dataset containing 7325 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Elaeagnus angustifolia",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 7325 records from 136 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045478-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rz6vsp
title: Occurrence Download

description: A dataset containing 1259 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (IDN.35_1, IDN.12_1, IDN.13_1, IDN.14_1, IDN.34_1, MYS.13_1, MYS.14_1, BRN)",
 "OccurrenceStatus is Present",
 "TaxonKey is Piper"
 ]
}

 The dataset includes 1259 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045477-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/6pgzt-ne425
title: AimB depletion w/ Glucose

description: Raw data files of AimB depletion w/ Glucose
description: <strong>Tilt Series Date:</strong> 2009-07-30</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: 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, Peach</p>
<strong>Collaborators and Roles:</strong> The AimB depletion strain was constructed by John Werner in Zemer Gitai's lab. Depletion was done by Zhuo Li. Data were collected and processed by Zhuo Li.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> The AimB depletion strain was depleted serially with 0.2% glucose. </p>
<strong>Sample Preparation:</strong> 10 nm</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-07-30-2/rawdata/</p>09jul30a_AimBglu_002.mrc,  Tilt Series (Pixel Size 1.2 nm), 1.0 GB  
        
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        09jul30a_AimBglu_002_full.rec,  Reconstruction (Pixel Size 2.4 nm), 367.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.3886/e237381
title: Technical Limits in Prescriptive Building Cultures and Tectonic Approaches

description: This dataset is provided exclusively as supplementary material for the Journal’s Editorial Team to verify methods and results described in the manuscript; it is not for publication or any form of reuse.
description: This dataset is provided exclusively as supplementary material for the Journal’s Editorial Team to verify methods and results described in the manuscript; it is not for publication or any form of reuse.
DOI: 10.22002/1j5nh-s0592
title: Bsubtilis349

description: Bsubtilis JFG349 (MJ007, SpoIIIE78-11-GFP)
description: <strong>Tilt Series Date:</strong> 2011-08-08</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Bacillus subtilis </p>
<strong>Strain:</strong> JFG349, ponA null, SpoIIIE73-11-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 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/etl2011-08-08-4/3dimage_24832/</p>3490004_full.rec,  Reconstruction (Pixel Size 1.9 nm), 1.0 GB  
        
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        3490004.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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DOI: 10.3886/e237381v1
title: Technical Limits in Prescriptive Building Cultures and Tectonic Approaches

description: This dataset is provided exclusively as supplementary material for the Journal’s Editorial Team to verify methods and results described in the manuscript; it is not for publication or any form of reuse.
description: This dataset is provided exclusively as supplementary material for the Journal’s Editorial Team to verify methods and results described in the manuscript; it is not for publication or any form of reuse.
DOI: 10.22002/srr7x-xt309
title: HeLa CHMP4A+VPS4DN

description: HeLa cells transfected with CHMP4A & VPS4DN constructs
description: <strong>Tilt Series Date:</strong> 2011-02-09</p>
<strong>Data Taken By:</strong> Cora Woodward</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: -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> Constructs provided by Wes Sundquist. 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 polyfect</p>
<strong>Sample Preparation:</strong> manual blotting</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2011-02-09-7/3dimage_68045/</p>11feb09b_C50-4d_012_full.rec,  Reconstruction (Pixel Size 2.0 nm), 346.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        11feb09b_C50-4d_012.st,  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/n4y29-tsn73
title: COS7 VPS4DN+pNLGFP

description: Cos7 cells transfected with VPS4DN (0.5 ug) and pNLGFP provirus construct (4 ug). Sample #C123
description: <strong>Tilt Series Date:</strong> 2012-03-28</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/cwl2012-03-28-18/3dimage_69128/</p>12mar28_pnlDN_C123_1_AT5bBT1_0010_full.rec,  Reconstruction (Pixel Size 2.0 nm), 619.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        12mar28_pnlDN_C123_1_AT5bBT1_0010.mrc,  Tilt Series (Pixel Size 0.5 nm), 677.3 MB  
        
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DOI: 10.22002/fq1dq-tsj36
title: M. xanthus (Dk1622)

description: Imaged for Lotte in search of T6SS. This is the WT strain that they work with.
description: <strong>Tilt Series Date:</strong> 2012-08-17</p>
<strong>Data Taken By:</strong> Matt Swulius</p>
<strong>Species / Specimen:</strong> Myxococcus xanthus</p>
<strong>Strain:</strong> </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: 23000x. </p>
<strong>Microscope:</strong> UCLA 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> Lotte Soregard-Anderson</p>
  mst2012-08-17-44_slicer5432.jpg: external vesicle mst2012-08-17-44_slicer5433.jpg: nested vesicle mst2012-08-17-44_slicer5435.jpg: nested vesicle mst2012-08-17-44_slicer5442.jpg: flat vesicle mst2012-08-17-44_slicer5446.jpg: unknown filament mst2012-08-17-44_slicer5450.jpg: flat vesicle
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mst2012-08-17-44/rawdata/</p>081712_2_DK1622_9.mrc,  Tilt Series (Pixel Size 1.11 nm), 1.1 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        081712_2_DK1622_9_part129_15.rec,  Reconstruction (Pixel Size 2.22 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/t2sst-zrx75
title: Alongum

description: Alongum_periplasmiclayers
description: <strong>Tilt Series Date:</strong> 2012-05-20</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: (-30.0°, 30.0°), 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> WesleyChen helped remove layers</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/etl2012-05-20-60/rawdata/</p>alongLys_20041.mrc,  Tilt Series (Pixel Size 0.95 nm), 512.1 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2012-05-20-60/rawdata/alongLys_20041.mrc"
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        alongLys_20041_full.rec,  Reconstruction (Pixel Size 1.95 nm), 309.7 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/hnssd-zbc46
title: HIV capsid purified trim5 alpha

description: 22500 df8, 26/A2 with no silt. Decorated HIV cores with TRIM5 alpha.
description: <strong>Tilt Series Date:</strong> 2013-12-13</p>
<strong>Data Taken By:</strong> Stephen Carter</p>
<strong>Species / Specimen:</strong> HIV cores</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: 26.0 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> 3dmod and SIRT</p>
<strong>Collaborators and Roles:</strong> Wes Sundquist</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Recombinant TRIM5 alpha, decorated HIV cores</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/scd2013-12-13-16/rawdata/</p>Trimb20016.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/scd2013-12-13-16/rawdata/Trimb20016.mrc"
        > <i class="download icon"></i> Download </a></p>

        Trimb20016_full.rec,  Reconstruction (Pixel Size 1.92 nm), 445.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/r3950-fby85
title: Alongum

description: Tprimitia_lysozyme
description: <strong>Tilt Series Date:</strong> 2012-05-20</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: (-30.0°, 30.0°), 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> WesleyChen helped remove layers</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/etl2012-05-20-144/rawdata/</p>trepLys2a0008.mrc,  Tilt Series (Pixel Size 0.95 nm), 842.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        trepLys2a0008_full.rec,  Reconstruction (Pixel Size 1.95 nm), 412.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/7kv6e-kpa52
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>
  etl2014-02-08-2_slicer4487.jpg: Granules
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2014-02-08-2/rawdata/</p>Paeruginosa_wt_t30002.mrc,  Tilt Series (Pixel Size 0.4 nm), 3.2 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        Paeruginosa_wt_t30002_part111_51.rec,  Reconstruction (Pixel Size 0.0 nm), 356.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/6q67s-syq40
title: Hyphomicrobium facile session13 34KX

description: high-order DNA, H-NS, nucleoid, asymmetric cell division
description: <strong>Tilt Series Date:</strong> 2009-04-14</p>
<strong>Data Taken By:</strong> Jian Shi</p>
<strong>Species / Specimen:</strong> Hyphomicrobium facile</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-64.0°, 64.0°), step: 1.5°, constant angular increment, dosage: 150.0 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 ATCC-656 media...</p>
<strong>Sample Preparation:</strong> C-flat grid, 10nm gold, 100% humidity...</p>
description: Files available via S3 at ttps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/jsa2009-04-14-9/rawdata/</p>09apr14a_Bhf2b_010.mrc,  Tilt Series (Pixel Size 0.632 nm), 738.2 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        09apr14a_Bhf2b_010_full.rec,  Reconstruction (Pixel Size 1.264 nm), 314.6 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/kg6nv-g4f49
title: 1003_deletion

description: Raw data files of 1003_deletion
description: <strong>Tilt Series Date:</strong> 2009-10-21</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>
  zla2009-10-21-49_slicer7242.jpg: budding vesicle .  peptidoglycan
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/zla2009-10-21-49/rawdata/</p>09oct21a_m1003_049.mrc,  Tilt Series (Pixel Size 1.192 nm), 1.1 GB  
        
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        09oct21a_m1003_049_part.rec,  Reconstruction (Pixel Size 2.384 nm), 471.9 MB  
        
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