cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/ntzf5-6me28
title: Bdellovibrio/E. coli minicell

description: Bdellovibrio invasion complex with E. coli WM3433 minicell, early stage of invasion
description: <strong>Tilt Series Date:</strong> 2013-09-28</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Bdellovibrio bacteriovorus</p>
<strong>Strain:</strong> HD100</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1.0°, constant angular increment, dosage: 100.0 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> Bdellovibrio Strain from Liz Sockett, WM3433 E. coli minicell from Jun Liu & William Margolin, Sample prepared by Lee Rettberg</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Bdellovibrio cells grown in S17-1 prey solution at 30 degrees, then filtered by 0.45 um filter, concentrated by centrifugation. WM3433 E. coli minicells were enriched by 2 step centrifugation (3,000 rcf, 3 min --> 9,000 rcf, 5 min). Invasion complex were made by mixing them for 15 min.</p>
<strong>Sample Preparation:</strong> Vitrobot settings: 100% humidity, 3µl sample, 10 nm BSA treated gold. -3 offset, 4 sec blot time, no drain. Ethane/propane mix. Grid: QF Cu finder</p>
  ycw2013-09-28-54_slicer14265.jpg: Bdellovibrio bacteriovorus .  unknown density at cell interface .  flagellum with protein vs lipid distinct ycw2013-09-28-54_slicer14266.jpg: Bdellovibrio bacteriovorus .  flagellar motor .  flagellum
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-09-28-54/rawdata/</p>20130928_YWC034_10054.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-09-28-54/rawdata/20130928_YWC034_10054.mrc"
        > <i class="download icon"></i> Download </a></p>

        20130928_YWC034_10054_full.rec,  Reconstruction (Pixel Size 1.56 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-09-28-54/3dimage_31461/20130928_YWC034_10054_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/98fzv-sq058
title: E.coli co-overexpression

description: E.coli co overexpression UU1607/pJC3/pPM25
description: <strong>Tilt Series Date:</strong> 2013-07-17</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> RP 437</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-66.0°, 66.0°), step: 2°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -3.0 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> Raptor</p>
<strong>Collaborators and Roles:</strong> strain sent from Heather Hodges (Kiessling lab), parent strain and plasmids published from the Parkinson lab</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grew UU1607/pJC3/pPM25 overnight in 5mL TB + 3.8µl Cm + 5µl CarbDiluted back 1:50 into 200mL TB + 152µl Cm + 200µl Carb + 50µl 1M IPTG + 200µl Na-salicylateGrew ~2 hours to mid-log phaseSpun down 10' at 5,000 x gResuspended in 300µl lysis buffer + 0.1µl PMSF + 0.75 µl 1,10-phenanthrolineAdded 33.3µl (2mg/ml) fresh lysozyme solution (20mg/ml in 10mM Tris-HCl, pH 8.0)Incubated 45' at 37°CAdded 1.67µl 1M MgCl2, 0.2µl 1M CaCl2, 0.33µl DNase IIncubated 30' at 37°CSpun down 4000 g 5 min Resuspended in activity buffer (cold room) without glycerol</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2013-07-17-31/rawdata/</p>cooverexpressionatlas4micronvarioussangles0001.mrc,  Tilt Series (Pixel Size 0.28 nm), 1.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2013-07-17-31/rawdata/cooverexpressionatlas4micronvarioussangles0001.mrc"
        > <i class="download icon"></i> Download </a></p>

        cooverexpressionatlas4micronvarioussangles0001_part67_38.rec,  Reconstruction (Pixel Size 0.56 nm), 2.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2013-07-17-31/3dimage_28395/cooverexpressionatlas4micronvarioussangles0001_part67_38.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.q4ecc4
title: Occurrence Download

description: A dataset containing 68 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Material sample, Specimen)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Issue is one of (Geodetic datum assumed WGS84, Continent derived from coordinates, The taxon ID was not found in the checklist, Institution match fuzzy, Institution collection mismatch, The taxon concept ID was not found in the checklist)",
 "TaxonKey is Tuber magnatum"
 ]
}

 The dataset includes 68 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012068-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/tw8pz-qhe27
title: H.pylori 26695 delta-PAI / AGS

description: Grid box: YWC098
description: <strong>Tilt Series Date:</strong> 2014-04-01</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</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: 1.5°, constant angular increment, dosage: 70.0 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> H.pylori cells from Carrie Shaffer</p>
<strong>Purification / Growth Conditions / Treatment:</strong> H.pylori cells grown in BLBB + 5% heat inactivated fetal bovine serum at 37 degrees in 5% CO2 chamber for O/N, OD600=~1.3. Back dilute to OD 0.3, grew to OD 0.6 for infection. AGS cells cultivated on QF Au finder grid for 1 day in RPMI + 10% FBS. Infect by pylori for 4 hr.</p>
<strong>Sample Preparation:</strong> Vitrobot settings: 100% humidity, 37 C, 3µl BSA treated 20 nm gold (100 ul gold+ 25 ul BSA, pellets from 8 tubes merged into ~40 ul final solution). Manual blot by Whatman 40 filter paper for 3 sec. Ethane/propane mix.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-04-01-36/rawdata/</p>20140401_YWC098_10036.mrc,  Tilt Series (Pixel Size 4.8 nm), 2.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-04-01-36/rawdata/20140401_YWC098_10036.mrc"
        > <i class="download icon"></i> Download </a></p>

        20140401_YWC098_10036_part81_1.rec,  Reconstruction (Pixel Size 19.2 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-04-01-36/3dimage_40765/20140401_YWC098_10036_part81_1.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/5v7tb-fj196
title: Bdellovibrio/E. coli minicell

description: Bdellovibrio invasion complex with E. coli WM3433 minicell, early stage of invasion
description: <strong>Tilt Series Date:</strong> 2013-09-28</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Bdellovibrio bacteriovorus</p>
<strong>Strain:</strong> HD100</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1.0°, constant angular increment, dosage: 100.0 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> Bdellovibrio Strain from Liz Sockett, WM3433 E. coli minicell from Jun Liu & William Margolin, Sample prepared by Lee Rettberg</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Bdellovibrio cells grown in S17-1 prey solution at 30 degrees, then filtered by 0.45 um filter, concentrated by centrifugation. WM3433 E. coli minicells were enriched by 2 step centrifugation (3,000 rcf, 3 min --> 9,000 rcf, 5 min). Invasion complex were made by mixing them for 15 min.</p>
<strong>Sample Preparation:</strong> Vitrobot settings: 100% humidity, 3µl sample, 10 nm BSA treated gold. -3 offset, 4 sec blot time, no drain. Ethane/propane mix. Grid: QF Cu finder</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-09-28-70/rawdata/</p>20130928_YWC034_10070.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-09-28-70/rawdata/20130928_YWC034_10070.mrc"
        > <i class="download icon"></i> Download </a></p>

        20130928_YWC034_10070_full.rec,  Reconstruction (Pixel Size 1.56 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-09-28-70/3dimage_31496/20130928_YWC034_10070_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/syqgh-ceh38
title: E.coli co-overexpression

description: E.coli co overexpression UU1607/pJC3/pPM25
description: <strong>Tilt Series Date:</strong> 2013-07-16</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> RP 437</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-66.0°, 66.0°), step: 2°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -4.0 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> Raptor</p>
<strong>Collaborators and Roles:</strong> strain sent from Heather Hodges (Kiessling lab), parent strain and plasmids published from the Parkinson lab</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grew UU1607/pJC3/pPM25 overnight in 5mL TB + 3.8µl Cm + 5µl CarbDiluted back 1:50 into 200mL TB + 152µl Cm + 200µl Carb + 50µl 1M IPTG + 200µl Na-salicylateGrew ~2 hours to mid-log phaseSpun down 10' at 5,000 x gResuspended in 300µl lysis buffer + 0.1µl PMSF + 0.75 µl 1,10-phenanthrolineAdded 33.3µl (2mg/ml) fresh lysozyme solution (20mg/ml in 10mM Tris-HCl, pH 8.0)Incubated 45' at 37°CAdded 1.67µl 1M MgCl2, 0.2µl 1M CaCl2, 0.33µl DNase IIncubated 30' at 37°CSpun down 4000 g 5 min Resuspended in activity buffer (cold room) without glycerol</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2013-07-16-5/rawdata/</p>cooverexpressionatlas4micronb0005.mrc,  Tilt Series (Pixel Size 0.28 nm), 1.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2013-07-16-5/rawdata/cooverexpressionatlas4micronb0005.mrc"
        > <i class="download icon"></i> Download </a></p>

        cooverexpressionatlas4micronb0005_part67_53.rec,  Reconstruction (Pixel Size 0.56 nm), 2.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2013-07-16-5/3dimage_28297/cooverexpressionatlas4micronb0005_part67_53.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/2t80c-ce236
title: H.pylori 26695 delta-cagH / AGS

description: Grid box YWC100
description: <strong>Tilt Series Date:</strong> 2014-04-14</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Helicobacter pylori</p>
<strong>Strain:</strong> 26695</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1.0°, constant angular increment, dosage: 170.0 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> H.pylori cells from Carrie Shaffer</p>
<strong>Purification / Growth Conditions / Treatment:</strong> H.pylori cells grown in BLBB + 5% heat inactivated fetal bovine serum at 37 degrees in 5% CO2 chamber for O/N, OD600=~0.7. Back dilute to OD 0.3, grew to OD 0.6 for infection. AGS cells cultivated on QF Au finder grid for 1 day in RPMI + 10% FBS. Infect by pylori for 4 hr.</p>
<strong>Sample Preparation:</strong> Vitrobot settings: 100% humidity, 37 C, 3µl BSA treated 20 nm gold (100 ul gold+ 25 ul BSA, pellets from 8 tubes merged into ~40 ul final solution). Manual blot by Whatman 40 filter paper for 2 sec. Ethane/propane mix.</p>
  ycw2014-04-14-23_slicer17906.jpg: cag T4SS wi fi particle?
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-04-14-23/rawdata/</p>20140414_YWC100_30012.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-04-14-23/rawdata/20140414_YWC100_30012.mrc"
        > <i class="download icon"></i> Download </a></p>

        20140414_YWC100_30012_full.rec,  Reconstruction (Pixel Size 1.92 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-04-14-23/3dimage_41624/20140414_YWC100_30012_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/h3er3-x9143
title: H.pylori 26695 WT / AGS

description: Grid box: YWC097
description: <strong>Tilt Series Date:</strong> 2014-03-31</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Helicobacter pylori</p>
<strong>Strain:</strong> 26695</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-65.0°, 65.0°), step: 1.5°, constant angular increment, dosage: 130.0 eV/Å²,  defocus: -10.0 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> Raptor</p>
<strong>Collaborators and Roles:</strong> H.pylori cells from Carrie Shaffer</p>
<strong>Purification / Growth Conditions / Treatment:</strong> H.pylori cells grown in BLBB + 5% heat inactivated fetal bovine serum at 37 degrees in 5% CO2 chamber for O/N, OD600=~1.3. Back dilute to OD 0.3, grew to OD 0.6 for infection. AGS cells cultivated on QF Au finder grid for 1 day in RPMI + 10% FBS. Infect by pylori for 4 hr.</p>
<strong>Sample Preparation:</strong> Vitrobot settings: 100% humidity, 37 C, 3µl BSA treated 20 nm gold (100 ul gold+ 25 ul BSA, pellets from 8 tubes merged into ~40 ul final solution). Manual blot by Whatman 40 filter paper for 3 sec. Ethane/propane mix.</p>
  ycw2014-03-31-18_slicer8108.jpg: Helicobacter pylori .  Periplasmic Vesicle .  Peptidoglycan ycw2014-03-31-18_slicer17877.jpg: cag T4SS wi fi particle
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-03-31-18/rawdata/</p>20140331_YWC097_10018.mrc,  Tilt Series (Pixel Size 4.8 nm), 2.5 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-03-31-18/rawdata/20140331_YWC097_10018.mrc"
        > <i class="download icon"></i> Download </a></p>

        20140331_YWC097_10018_full.rec,  Reconstruction (Pixel Size 19.2 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-03-31-18/3dimage_40654/20140331_YWC097_10018_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/b9chj-mt877
title: H. pylori 26695 / 20 nm gold-DNA

description: Grid box LR005
description: <strong>Tilt Series Date:</strong> 2014-01-21</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</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: 1.0°, constant angular increment, dosage: 190.0 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> H.pylori 26695 from ATCC, prepared by Lee Rettberg</p>
<strong>Purification / Growth Conditions / Treatment:</strong> H.pylori cells grown in BLBB + 10% heat inactivated fetal bovine serum at 37 degrees in microaerobic chamber with GasPak EZ Campy Sachets for 3 days, OD600=0.4.  Spun cells down at 3000rpm for 5 minutes to concentrate before using; resuspended pellet.</p>
<strong>Sample Preparation:</strong> Combined 20ul cells with 10ul 10 nm gold fiducials (100ul gold and 25ul BSA) and 10ul 20 nm streptavidin gold-biotin DNA.  Grids frozen 7-20 minutes after combining DNA labeled gold with concentrated cells.  Vitrobot settings: 100% humidity, 22.5 C, -3 offset, 4.5 sec blot time, Ethane/propane mix.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-01-21-4/rawdata/</p>20140121_LR005_10001.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/ycw2014-01-21-4/rawdata/20140121_LR005_10001.mrc"
        > <i class="download icon"></i> Download </a></p>

        20140121_LR005_10001_full.rec,  Reconstruction (Pixel Size 1.92 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-01-21-4/3dimage_37886/20140121_LR005_10001_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/byqxd-50a73
title: Hp 26695 delta-cagH / Hs.746T

description: grid box: YWC091
description: <strong>Tilt Series Date:</strong> 2014-02-17</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</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: 1.0°, constant angular increment, dosage: 210.0 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> H.pylori cells from Carrie Shaffer</p>
<strong>Purification / Growth Conditions / Treatment:</strong> H.pylori cells grown in BLBB + 5% heat inactivated fetal bovine serum at 37 degrees in 5% CO2 chamber to OD600=1, back diluted to OD 0.3, culture to OD 0.6. AGS cells cultivated on QF Au finder grid for 2 days in DMEM + 10% FBS. Infect by pylori for 4 hr.</p>
<strong>Sample Preparation:</strong> Vitrobot settings: 100% humidity, 37 C, 3µl BSA treated 20 nm gold (100 ul gold+ 25 ul BSA, pellets from 6 tubes merged into ~30 ul final solution). Manual blot by Whatman 40 filter paper for 3 sec. Ethane/propane mix.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-02-17-6/rawdata/</p>20140217_YWC091_10006.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/ycw2014-02-17-6/rawdata/20140217_YWC091_10006.mrc"
        > <i class="download icon"></i> Download </a></p>

        20140217_YWC091_10006_full.rec,  Reconstruction (Pixel Size 1.92 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-02-17-6/3dimage_39060/20140217_YWC091_10006_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/7ka83-1fn62
title: H. pylori 26695 / 20 nm gold-DNA

description: Grid box LR005
description: <strong>Tilt Series Date:</strong> 2014-01-21</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</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: 1.0°, constant angular increment, dosage: 190.0 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> H.pylori 26695 from ATCC, prepared by Lee Rettberg</p>
<strong>Purification / Growth Conditions / Treatment:</strong> H.pylori cells grown in BLBB + 10% heat inactivated fetal bovine serum at 37 degrees in microaerobic chamber with GasPak EZ Campy Sachets for 3 days, OD600=0.4.  Spun cells down at 3000rpm for 5 minutes to concentrate before using; resuspended pellet.</p>
<strong>Sample Preparation:</strong> Combined 20ul cells with 10ul 10 nm gold fiducials (100ul gold and 25ul BSA) and 10ul 20 nm streptavidin gold-biotin DNA.  Grids frozen 7-20 minutes after combining DNA labeled gold with concentrated cells.  Vitrobot settings: 100% humidity, 22.5 C, -3 offset, 4.5 sec blot time, Ethane/propane mix.</p>
  ycw2014-01-21-11_slicer5800.jpg: tube
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2014-01-21-11/rawdata/</p>20140121_LR005_20006.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.4 GB  
        
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        20140121_LR005_20006_full.rec,  Reconstruction (Pixel Size 1.92 nm), 712.7 MB  
        
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