cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/hxnmz-zpg97
title: B. subtilis 3267

description: Raw data files of B. subtilis 3267
description: <strong>Tilt Series Date:</strong> 2011-12-17</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>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> Joe Pogliano</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grow in LB</p>
<strong>Sample Preparation:</strong> Polara</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2011-12-17-28/rawdata/</p>3267a0013.mrc,  Tilt Series (Pixel Size 1.9 nm), 1.0 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2011-12-17-28/rawdata/3267a0013.mrc"
        > <i class="download icon"></i> Download </a></p>

        3267a0013_full.rec,  Reconstruction (Pixel Size 3.8 nm), 929.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/y6yph-fgk83
title: sporulating Bsubtilis MJ007

description: sporulating Bsubtilis MJ007, skinny Bacillus
description: <strong>Tilt Series Date:</strong> 2011-03-29</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> Leginon</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/etl2011-03-29-48/3dimage_25490/</p>11mar29a_gr5_056_part.rec,  Reconstruction (Pixel Size 1.9 nm), 943.7 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        11mar29a_gr5_056.mrc,  Tilt Series (Pixel Size 0.95 nm), 947.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.ez4s8b
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mustela erminea",
 "Country is United States of America",
 "StateProvince is California",
 "Year is greater than or equal to 2009",
 "Year is less than or equal to 2025",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "BasisOfRecord is Human Observation"
 ]
}

 The dataset includes 20 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047619-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/2mv9r-dqs38
title: HUVECs 24h Infx pNLgfp

description: HUVECs infected by spinoculation with VSVG-pNL4GFP, frozen 24 h after synchronized entry
description: <strong>Tilt Series Date:</strong> 2011-03-31</p>
<strong>Data Taken By:</strong> Cora Woodward</p>
<strong>Species / Specimen:</strong> HUVECs</p>
<strong>Strain:</strong> </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: -7.0 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> pNL4GFP provirus construct from Irvin Chen (UCLA). Cells infected, frozen and imaged at Caltech by Cora Woodward</p>
<strong>Purification / Growth Conditions / Treatment:</strong> whole cells grown on grids and transfected</p>
<strong>Sample Preparation:</strong> manual blotting</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2011-03-31-28/3dimage_68455/</p>11mar31a_C_66-3_034_full.rec,  Reconstruction (Pixel Size 2.0 nm), 638.2 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        11mar31a_C_66-3_034.st,  Tilt Series (Pixel Size 0.5 nm), 906.0 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/sp5jq-sqv47
title: HUVECs CHMP4A+VPS4DN

description: HUVECs cells transfected with CHMP4A+VPS4DN constructs using Nucleofector Kit. Sample# C58-2
description: <strong>Tilt Series Date:</strong> 2011-03-31</p>
<strong>Data Taken By:</strong> Cora Woodward</p>
<strong>Species / Specimen:</strong> HUVECs</p>
<strong>Strain:</strong> </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: -7.0 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> CHMP4A and VPS4DN construct 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</p>
<strong>Sample Preparation:</strong> manual blotting</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2011-03-31-9/3dimage_68417/</p>11mar31a_C_58-2_010_full.rec,  Reconstruction (Pixel Size 2.0 nm), 645.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        11mar31a_C_58-2_010.st,  Tilt Series (Pixel Size 0.5 nm), 255.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.kar9ud
title: Occurrence Download

description: A dataset listing the 64 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "GadmGid is one of (USA.5.56_1, USA.5.19_1)",
 "TaxonKey is Ephemeroptera"
 ]
}

 The dataset's 64 records were derived from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047607-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/r0fy3-jsk79
title: M-MuLV 43D infected MEFs

description: M-MuLV 43D wildtype
description: <strong>Tilt Series Date:</strong> 2014-03-29</p>
<strong>Data Taken By:</strong> Cora Woodward</p>
<strong>Species / Specimen:</strong> Murine embryonic fibroblast (MEFs)</p>
<strong>Strain:</strong> Primary cells</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -6.0 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> pipeline raptor</p>
<strong>Collaborators and Roles:</strong> M-MuLV infected cells provided by Hung Fan (UC Irvine)</p>
<strong>Sample Preparation:</strong> Whole MEFs infected with M-MuLV 43D were cultured on Au grids, blotted manually and plunge frozen.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/cwl2014-03-29-20/rawdata/</p>14mar29_C182-1_MLV43D_3T3_AT1BT2_0011.mrc,  Tilt Series (Pixel Size 0.5 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        14mar29_C182-1_MLV43D_3T3_AT1BT2_0011_full.rec,  Reconstruction (Pixel Size 2.0 nm), 534.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.r7m6v6
title: Occurrence Download

description: A dataset containing 51668 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ginkgo biloba",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 51668 records from 113 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047590-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17603/ds2-fhem-g324
title: Research Experiences for Undergraduates (REU), NHERI 2025: Surrogate-Aided Bayesian Calibration on Finite Element Model of Reinforced Concrete Bridge Column

description: This project is uses a surrogate-aided Bayesian calibration algorithm to calibrate a model of a reinforce concrete bridge column subjected to three earthquakes sequentially. This project utilizes a surrogate-aided Bayesian calibration algorithm which makes it possible to perform Bayesian calibration on finite element models with longer evaluation times. The audience of this paper is civil engineers.
DOI: 10.22002/enxzt-an133
title: Eco 082609 MP11

description: Escherichia coli, 09sep24a_MP11_082609_7_1_2_son_004,
description: <strong>Tilt Series Date:</strong> 2009-09-24</p>
<strong>Data Taken By:</strong> Martin Pilhofer</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> 7.1.2 Martin</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>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mpa2009-09-24-4/rawdata/</p>09sep24a_MP11_082609_7_1_2_son_004.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09sep24a_MP11_082609_7_1_2_son_004_part.rec,  Reconstruction (Pixel Size 1.9 nm), 943.7 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.de37nn
title: Occurrence Download

description: A dataset containing 943 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gallus gallus",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 943 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047620-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/33my7-j3r74
title: Pfl 121509 MP26

description: Prosthecobacter fluviatilis, 09dec18a_MP26___Pfl_006,
description: <strong>Tilt Series Date:</strong> 2009-12-18</p>
<strong>Data Taken By:</strong> Martin Pilhofer</p>
<strong>Species / Specimen:</strong> Prosthecobacter fluviatilis</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>
  mpa2009-12-18-6_slicer8580.jpg: Filaments  .  Prosthecobacter fluviatilis mpa2009-12-18-6_slicer8581.jpg: REZ  .  Ribosome exclusion zone .  Prosthecobacter fluviatilis
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mpa2009-12-18-6/rawdata/</p>09dec18a_MP26___Pfl_006.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09dec18a_MP26___Pfl_006_full.rec,  Reconstruction (Pixel Size 1.9 nm), 838.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.v6facb
title: Occurrence Download

description: A dataset containing 9520 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "TaxonKey is Cetacea",
 "Year is greater than or equal to 2025",
 "EventDate is less than or equal to 2025-12-31",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation, Living Specimen, Occurrence evidence)",
 "Geometry POLYGON((-85 -85, 20 -85, 20 85, -85 85, -85 -85))"
 ]
}

 The dataset includes 9520 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047621-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/jsk22-8j229
title: Dividing vegetative A. longum

description: dividing cell, rhamnose
description: <strong>Tilt Series Date:</strong> 2010-05-30</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: 22500x. </p>
<strong>Acquisition Software:</strong> UCSF Tomo</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> grown on rhamnose for 24h</p>
<strong>Sample Preparation:</strong> R2/2 quantifoil grid, 20 nm gold, 100% humidity</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2010-05-30-1/rawdata/</p>Target3.mrc,  Tilt Series (Pixel Size 0.0 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        3_full.rec,  Reconstruction (Pixel Size 0.0 nm), 386.1 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/zcgpc-k2503
title: Correlatve LMEM stalkbands

description: LMEM experiment of Caulobacter stalkbands
description: <strong>Tilt Series Date:</strong> 2010-12-27</p>
<strong>Data Taken By:</strong> Ariane Briegel</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: °, constant angular increment, dosage: 0.0 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> IMOD, PHOTOSHOP for the overlay with the LM image</p>
<strong>Collaborators and Roles:</strong> Martin Thanbichler</p>
<strong>Purification / Growth Conditions / Treatment:</strong> grow SW30 overnight in PYE. induce in phosphate limiting M2G - P medium with Xylose for 24 hours. </p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2010-12-27-15/rawdata/</p>10dec27a_SBLMEM_007.st,  Tilt Series (Pixel Size 0.0 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        10dec27a_SBLMEM_007.rec,  Reconstruction (Pixel Size 0.0 nm), 167.8 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.a3bxkf
title: Occurrence Download

description: A dataset containing 10602 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "TaxonKey is Phocidae",
 "Year is greater than or equal to 2025",
 "EventDate is less than or equal to 2025-12-31",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation, Living Specimen, Occurrence evidence)",
 "Geometry POLYGON((-85 -85, 20 -85, 20 85, -85 85, -85 -85))"
 ]
}

 The dataset includes 10602 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047622-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/tmvf4-tq909
title: Eco 082509 MP15

description: Escherichia coli, 09sep10b_082509MP15_712ly_076,
description: <strong>Tilt Series Date:</strong> 2009-09-10</p>
<strong>Data Taken By:</strong> Martin Pilhofer</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> 7.1.2 Martin</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>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mpa2009-09-10-4/rawdata/</p>09sep10b_082509MP15_712ly_076.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        09sep10b_082509MP15_712ly_076_part.rec,  Reconstruction (Pixel Size 1.9 nm), 838.9 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/02q9k-16261
title: wild type B. subtilis

description: sacculi of sporulating wtBsubtilis
description: <strong>Tilt Series Date:</strong> 2011-07-05</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Bacillus subtilis</p>
<strong>Strain:</strong> subsp. subtilis str. 168</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> Leginon</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/etl2011-07-05-1/3dimage_25065/</p>target20016_full.rec,  Reconstruction (Pixel Size 1.9 nm), 509.9 MB  
        
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        target20016.mrc,  Tilt Series (Pixel Size 0.95 nm), 1.0 GB  
        
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