cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/29f4g-rm555
title: Agro_piliprep7_highmag_16.09.15

description: AD1484:A348dB/pAD2079, virB on a multicopy-plasmidFor pili prep, following buffer was used: 20 mM Tris-HCl, pH 7.8, 100 mM NaCl and 0.5% deoxycholate.Did not add any gold. I assumed we will only do high resolution imaging. However, later we decided to do tomography and used patch tracking to process the data. Grids were little contaminated and data is not very high quality.
description: <strong>Tilt Series Date:</strong> 2015-09-16</p>
<strong>Data Taken By:</strong> Debnath Ghosal</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: 1.0°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: -10.0 μm,  magnification: 34000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Patch Tracking</p>
<strong>Collaborators and Roles:</strong> Pili prep from induced strain (AD1484) was done by Anath Das. Data collected and processed by Debnath Ghosal using Caltech tomography pipeline. This data was collected at the F30, Caltech.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> For pili prep, following buffer was used: 20 mM Tris-HCl, pH 7.8, 100 mM NaCl and 0.5% deoxycholate.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: incubate at 100% humidity for at least 15 min, 4µl sample, blot force 6, blot time 3 sec. Wait time 30 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Did not add any gold. I assumed we will only do high resolution imaging. However, later we decided to do tomography and used patch tracking to process the data.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2015-09-16-6/rawdata/</p>AD1484_piliprep70005.mrc,  Tilt Series (Pixel Size 0.32 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2015-09-16-6/rawdata/AD1484_piliprep70005.mrc"
        > <i class="download icon"></i> Download </a></p>

        AD1484_piliprep70005.rec,  Reconstruction (Pixel Size 1.28 nm), 890.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2015-09-16-6/3dimage_67940/AD1484_piliprep70005.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/0hxsy-m6r42
title: Staphylococcus aureus_WT

description: S. aureus WT cells grown in TSB media.
description: <strong>Tilt Series Date:</strong> 2017-07-20</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Staphylococcus aureus</p>
<strong>Strain:</strong> subsp. aureus str. Newman</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-50.0°, 50.0°), step: 2°, constant angular increment, dosage: 240.0 eV/Å²,  defocus: -8.0 μm,  magnification: 27500x. </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> Strain sent to us by Tracy Palmer, University of Dundee. Data collected by Debnath Ghosal.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in TSA and in TSB  (Oxoid TSA and TSB from Thermo Fisher 10525943 & 10137562). Dilute an overnight culture 1/100 and grow for ~4 hr (to OD 2) then freeze.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 6 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Add gold to cells prior to freezing: 1ul of gold to 4 ul of cells, freeze.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2017-07-20-39/rawdata/</p>Saureus_WT_201707200038.mrc,  Tilt Series (Pixel Size 0.39 nm), 1.5 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2017-07-20-39/rawdata/Saureus_WT_201707200038.mrc"
        > <i class="download icon"></i> Download </a></p>

        Saureus_WT_201707200038_full.rec,  Reconstruction (Pixel Size 1.56 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2017-07-20-39/3dimage_87351/Saureus_WT_201707200038_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/eea6c-5k826
title: Agrobacter

description: Mutant Agro cells, delVirB (whole of the VirB system deleted). Grown on induction plate pH5.8 in exactly similar way as the AD1484 strain.
description: <strong>Tilt Series Date:</strong> 2015-12-25</p>
<strong>Data Taken By:</strong> Qing Yao</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: 1.0°, constant angular increment, dosage: 195.0 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> UCSFtomo</p>
<strong>Collaborators and Roles:</strong> Strain constructed by Anath Das. Data collected and processed by Debnath Ghosal using Caltech tomography pipeline.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grow at 19C for 4 days on induction plate. Add 400 ul of induction media to one of the induction plates (containing lawn of Agrobacterium AD348_delVirB) and wash the plate by gently rolling the liquid. Add gold to this: 1ul of gold to 4 ul of cells, freeze.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 3 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/qya2015-12-25-22/3dimage_71862/</p>agrobacter_20007_full.rec,  Reconstruction (Pixel Size 1.92 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/qya2015-12-25-22/3dimage_71862/agrobacter_20007_full.rec"
        > <i class="download icon"></i> Download </a></p>

        agrobacter_20007.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/qya2015-12-25-22/rawdata/agrobacter_20007.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/jt1z5-dpm57
title: wt_perfusion_fixed

description: Raw data files of wt_perfusion_fixed
description: <strong>Tilt Series Date:</strong> 2015-09-17</p>
<strong>Data Taken By:</strong> Poorna Subramanian</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: 1.0°, constant angular increment, dosage: 145.0 eV/Å²,  defocus: -8.0 μm,  magnification: 41000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> The cells look good on scope. Next time use 1.5ul gold.</p>
<strong>Collaborators and Roles:</strong> Moh and Sahand USC</p>
<strong>Purification / Growth Conditions / Treatment:</strong> This sample is wt cells grown in perfusion set-up. It is fixed with 2.5% glutaraldehyde for 15 minutes. The grid was prepared by Sahand on 9/10/15. The grid was triple rinsed in distilled water and saved in distilled water until freezing on 9/15/15 at USC using manual plunger.</p>
<strong>Sample Preparation:</strong> This is gold grid with honey C. The grid was pulled out quickly from media. 1.2ul of 10nm gold was added immediately to the cells on the C side -same side as cells were present. The grid was loaded on manual plunger and blotted from behind- opposite of C side. And then plunge frozen.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2015-09-17-7/3dimage_69503/</p>091615_perfusionwtfixed_sq50007_part121_43.rec,  Reconstruction (Pixel Size 1.04 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2015-09-17-7/3dimage_69503/091615_perfusionwtfixed_sq50007_part121_43.rec"
        > <i class="download icon"></i> Download </a></p>

        091615_perfusionwtfixed_sq50007.mrc,  Tilt Series (Pixel Size 0.26 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2015-09-17-7/rawdata/091615_perfusionwtfixed_sq50007.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/k0e7k-30t78
title: AD348_delVirB_Agro

description: Mutant Agro cells, delVirB (whole of the VirB system deleted). Grown on induction plate pH5.8 in exactly similar way as the AD1484 strain.
description: <strong>Tilt Series Date:</strong> 2016-01-06</p>
<strong>Data Taken By:</strong> Debnath Ghosal</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: 1.0°, constant angular increment, dosage: 160.0 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> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Strain constructed by Anath Das. Data collected and processed by Debnath Ghosal using Caltech tomography pipeline.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grow at 19C for 4 days on induction plate. Add 400 ul of induction media to one of the induction plates (containing lawn of Agrobacterium AD348_delVirB) and wash the plate by gently rolling the liquid. Add gold to this: 1ul of gold to 4 ul of cells, freeze.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 3 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/dga2016-01-06-22/3dimage_72211/</p>AD348_delVirB0022.rec,  Reconstruction (Pixel Size 19.2 nm), 890.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2016-01-06-22/3dimage_72211/AD348_delVirB0022.rec"
        > <i class="download icon"></i> Download </a></p>

        AD348_delVirB0022.mrc,  Tilt Series (Pixel Size 4.8 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2016-01-06-22/rawdata/AD348_delVirB0022.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/svbkv-2e771
title: Myxococcus xanthus delta-pomXYZ

description: Grid box YWC123(sent to Janelia)
description: <strong>Tilt Series Date:</strong> 2015-05-01</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Myxococcus xanthus</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1.0°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -6.0 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> Strain form Lotte Sogaard-Andersen</p>
<strong>Purification / Growth Conditions / Treatment:</strong> 10ml cells into 100ml fresh CTT at 30C shaking for 2 days. Resuspend cells with pipet to break up clumps. Spun down 100ml culture in SS-34 rotor for 10 minutes at 5,000rcf. Discard pellet. Spin supernatant for 15 minutes at 30,000rcf.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK vi) settings: 100% humidity, 3µl sample, 10 mg/ml BSA treated gold. Blot force 6, blot time 2 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/ycw2015-05-01-18/rawdata/</p>YWC123-B-tomo0007.mrc,  Tilt Series (Pixel Size 0.42 nm), 3.6 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2015-05-01-18/rawdata/YWC123-B-tomo0007.mrc"
        > <i class="download icon"></i> Download </a></p>

        YWC123-B-tomo0007_part131_10.rec,  Reconstruction (Pixel Size 1.68 nm), 516.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2015-05-01-18/3dimage_55632/YWC123-B-tomo0007_part131_10.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.y8svcq
title: Occurrence Download

description: A dataset containing 4373 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Tamandua tetradactyla"
 ]
}

 The dataset includes 4373 records from 126 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006187-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/5d5p7-gaw08
title: wt_perfusion_fixed

description: Raw data files of wt_perfusion_fixed
description: <strong>Tilt Series Date:</strong> 2015-09-19</p>
<strong>Data Taken By:</strong> Poorna Subramanian</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: 1.0°, constant angular increment, dosage: 135.0 eV/Å²,  defocus: -10.0 μm,  magnification: 41000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> The cells look good on scope. Next time use 1.5ul gold.</p>
<strong>Collaborators and Roles:</strong> Moh and Sahand USC</p>
<strong>Purification / Growth Conditions / Treatment:</strong> This sample is wt cells grown in perfusion set-up. It is fixed with 2.5% glutaraldehyde for 15 minutes. The grid was prepared by Sahand on 9/10/15. The grid was triple rinsed in distilled water and saved in distilled water until freezing on 9/15/15 at USC using manual plunger.</p>
<strong>Sample Preparation:</strong> This is gold grid with honey C. The grid was pulled out quickly from media. 1.2ul of 10nm gold was added immediately to the cells on the C side -same side as cells were present. The grid was loaded on manual plunger and blotted from behind- opposite of C side. And then plunge frozen.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2015-09-19-7/3dimage_69609/</p>091915_perfusionwtfixed_sq70007.rec,  Reconstruction (Pixel Size 1.04 nm), 889.0 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2015-09-19-7/3dimage_69609/091915_perfusionwtfixed_sq70007.rec"
        > <i class="download icon"></i> Download </a></p>

        091915_perfusionwtfixed_sq70007.mrc,  Tilt Series (Pixel Size 0.26 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/psa2015-09-19-7/rawdata/091915_perfusionwtfixed_sq70007.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/pswdd-wnm36
title: Coxiella_burnetii_ wtACCMD_pH4d5

description: Coxiella burnetii Nine Mile phase II clone 4 (NMIIC4) strain. Wild-type cells day-5 culture. Cells grown in acidic media ACCMD and pH 4.75
description: <strong>Tilt Series Date:</strong> 2017-10-17</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Coxiella burnetii</p>
<strong>Strain:</strong> Nine Mile phase II clone 4</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: 27500x. </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> Strain sent to us by Robert Heinzen. Data collected and processed by Debnath Ghosal and Mohammed Kaplan using Caltech tomography pipeline.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in Robert Heinzen's lab @NIAID and ~50 ul cells were sent to us.</p>
<strong>Sample Preparation:</strong> Refer to Heinzen lab. Freezing: 100% humidity, 4µl sample, Blot force 6, blot time 4 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Add gold to cells prior to freezing: 1ul of gold to 4 ul of cells, freeze.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2017-10-17-8/rawdata/</p>Cb_d5pH4_201710170002.mrc,  Tilt Series (Pixel Size 0.39 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2017-10-17-8/rawdata/Cb_d5pH4_201710170002.mrc"
        > <i class="download icon"></i> Download </a></p>

        Cb_d5pH4_201710170002_part61_2.rec,  Reconstruction (Pixel Size 1.56 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2017-10-17-8/3dimage_89183/Cb_d5pH4_201710170002_part61_2.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/7s8fq-cfb16
title: Agro_AD1484_piliprep7_20150916

description: AD1484:A348dB/pAD2079, virB on a multicopy-plasmidFor pili prep, following buffer was used: 20 mM Tris-HCl, pH 7.8, 100 mM NaCl and 0.5% deoxycholate. Did not add any gold. I assumed we will only do high resolution imaging. However, later we decided to do tomography and used patch tracking to process the data. Grids were little contaminated and data is not very high quality.
description: <strong>Tilt Series Date:</strong> 2015-09-15</p>
<strong>Data Taken By:</strong> Debnath Ghosal</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: 1.0°, constant angular increment, dosage: 140.0 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> Patch Tracking</p>
<strong>Collaborators and Roles:</strong> Pili prep from induced strain (AD1484) was done  by Anath Das. Data collected and processed by Debnath Ghosal using Caltech tomography pipeline. This data was collected at the F30, Caltech.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> For pili prep, following buffer was used: 20 mM Tris-HCl, pH 7.8, 100 mM NaCl and 0.5% deoxycholate.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: incubate at 100% humidity for at least 15 min, 4µl sample, blot force 6, blot time 3 sec. Wait time 30 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200. Did not add any gold. I assumed we will only do high resolution imaging. However, later we decided to do tomography and used patch tracking to process the data.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2015-09-15-21/rawdata/</p>AD1484_piliprep_70018.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/dga2015-09-15-21/rawdata/AD1484_piliprep_70018.mrc"
        > <i class="download icon"></i> Download </a></p>

        AD1484_piliprep_70018.rec,  Reconstruction (Pixel Size 1.92 nm), 890.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2015-09-15-21/3dimage_67912/AD1484_piliprep_70018.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/wv2kn-p2441
title: Agro_AD1408_GFP-VirB11

description: AD1408: pAdi16/A348dB11; Kanamycin 50; Functional GFP-VirB11 fusion.
description: <strong>Tilt Series Date:</strong> 2015-07-21</p>
<strong>Data Taken By:</strong> Debnath Ghosal</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: 1.0°, constant angular increment, dosage: 121.0 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> Strain constructed by Anath Das. Data collected and processed by Debnath Ghosal using Caltech tomography pipeline.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grow culture in AB medium (pH 7) at 30C. For induction, use 375 µl of a decent ON culture to inoculate 5 ml AB mes pH 5.8 medium containing 100 µM Acetosyringone and antibiotic (Kan 50). Grow at 20C for 18 hr. Freeze cells.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 4µl sample, 10 mg/ml BSA treated gold. Blot force 6, blot time 3 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/dga2015-07-21-5/rawdata/</p>1408_atlas0005.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/dga2015-07-21-5/rawdata/1408_atlas0005.mrc"
        > <i class="download icon"></i> Download </a></p>

        1408_atlas0005.rec,  Reconstruction (Pixel Size 1.92 nm), 889.0 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/dga2015-07-21-5/3dimage_59351/1408_atlas0005.rec"
        > <i class="download icon"></i> Download </a></p>