cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/vfgjk-21270
title: Caulobacter crescentus

description: Raw data files of Caulobacter crescentus
description: <strong>Tilt Series Date:</strong> 2018-10-08</p>
<strong>Data Taken By:</strong> Lujia Zhang</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: 1.0°, constant angular increment, dosage: 252.8 eV/Å²,  defocus: -10.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> For the research of pilus, Del E from Partick</p>
<strong>Purification / Growth Conditions / Treatment:</strong> swarmer cell, PVP</p>
<strong>Sample Preparation:</strong> force 4, time 6, humidity 100%, temp. 22</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-08-13/rawdata/</p>targ14.mrc,  Tilt Series (Pixel Size 0.3712 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-08-13/rawdata/targ14.mrc"
        > <i class="download icon"></i> Download </a></p>

        targ14_full.rec,  Reconstruction (Pixel Size 1.4848 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-08-13/3dimage_99516/targ14_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/fdf8y-7p633
title: Caulobacter crescentus

description: Raw data files of Caulobacter crescentus
description: <strong>Tilt Series Date:</strong> 2018-10-17</p>
<strong>Data Taken By:</strong> Lujia Zhang</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: 1.0°, constant angular increment, dosage: 252.8 eV/Å²,  defocus: -10.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> For the research of pilus, Del E from Partick</p>
<strong>Purification / Growth Conditions / Treatment:</strong> swarmer cell, PVP</p>
<strong>Sample Preparation:</strong> force 4, time 6, humidity 100%, temp. 22</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-17-98/rawdata/</p>targ96.mrc,  Tilt Series (Pixel Size 0.3712 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-17-98/rawdata/targ96.mrc"
        > <i class="download icon"></i> Download </a></p>

        targ96_full.rec,  Reconstruction (Pixel Size 1.4848 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-10-17-98/3dimage_99673/targ96_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/85gtw-4m961
title: Legionella delta DotO

description: Strain from Yale
description: <strong>Tilt Series Date:</strong> 2019-01-15</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: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -6.0 μm,  magnification: 53000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Jun Liu</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Early stationary phase, broad vitrobot, R2/2 quantifoil 200 mesh copper grid</p>
<strong>Sample Preparation:</strong> 10 nm gold beads</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-01-15-20/rawdata/</p>tilt_50.mrc,  Tilt Series (Pixel Size 0.27 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-01-15-20/rawdata/tilt_50.mrc"
        > <i class="download icon"></i> Download </a></p>

        tilt_50_full.rec,  Reconstruction (Pixel Size 1.08 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-01-15-20/3dimage_101019/tilt_50_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/na168-pf365
title: P. gingivalis PorV mutant

description: Raw data files of P. gingivalis PorV mutant
description: <strong>Tilt Series Date:</strong> 2019-01-23</p>
<strong>Data Taken By:</strong> Georges Chreifi</p>
<strong>Species / Specimen:</strong> Porphyromonas gingivalis</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 3°, constant angular increment, dosage: 150.0 eV/Å²,  defocus: -6.0 μm,  magnification: 42000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Eric Reynolds</p>
<strong>Sample Preparation:</strong> Liquid culture. Harvested and plunge-frozen in late phase.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2019-01-23-35/rawdata/</p>2-PorV-41.mrc,  Tilt Series (Pixel Size 0.3519 nm), 1.2 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2019-01-23-35/rawdata/2-PorV-41.mrc"
        > <i class="download icon"></i> Download </a></p>

        2-PorV-41_full.rec,  Reconstruction (Pixel Size 1.4076 nm), 267.3 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2019-01-23-35/3dimage_100567/2-PorV-41_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.x9bea6
title: Occurrence Download

description: A dataset containing 99 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "Geometry POLYGON((93 29,112 29,112 43,93 43,93 29))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Artemisia ordosica"
 ]
}

 The dataset includes 99 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045267-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4g5qbt
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ottelia fengshanensis"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045266-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/64ma1-v3b49
title: Legionella delta DotOB

description: DotF-GFP background
description: <strong>Tilt Series Date:</strong> 2019-02-13</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: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -5.0 μm,  magnification: 53000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Joseph Vogel</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Early stationary phase</p>
<strong>Sample Preparation:</strong> 10 nm gold beads, broad vitrobot, R2/2 200 mesh copper quantifoil grids</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-02-13-92/rawdata/</p>20190213_deltaOB_42.mrc,  Tilt Series (Pixel Size 0.27 nm), 1.7 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-02-13-92/rawdata/20190213_deltaOB_42.mrc"
        > <i class="download icon"></i> Download </a></p>

        20190213_deltaOB_42_full.rec,  Reconstruction (Pixel Size 1.08 nm), 445.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.6084/m9.figshare.29986058.v1
title: Advancing neuropsychology: Insights and recommendations from qualitative content analysis of 94 brain-behavior experts

description: <b>Objective:</b> One core value of neuropsychology is to demonstrate continued growth and development with respect to science, education, and clinical application. The current study sought to identify opportunities to advance the field through a qualitative analysis of insights from a large, diverse group of brain-behavior experts. <b>Method:</b> Ninety-four guests from the open access science-based podcast, <i>Navigating Neuropsychology,</i> responded to the standardized question, “If you could improve one thing about the field of neuropsychology, what would that be?” Interview responses were audio-recorded, transcribed, and analyzed. A codebook was developed and refined, and two independent coders systematically analyzed the transcripts using an iterative process. A thematic analysis approach identified recommendations for growth within the field of neuropsychology. <b>Results:</b> Six major themes emerged: (1) Improve cultural responsivity, sensitivity to context, and access to care; (2) Conduct methodologically rigorous research and translate it to clinical practice; (3) Embrace and integrate appropriate digital technologies; (4) Emphasize interdisciplinary and patient-centered communication; (5) Advance training in neuropsychology; (6) Expand the scope and roles of neuropsychologists. <b>Conclusions:</b> Recommendations from a large group of brain-behavior experts highlight critical areas for growth, which may serve as a foundation to advance neuropsychology. Future efforts should focus on policy changes, advocacy, training program development, and further research to meet the evolving needs of the field.
DOI: 10.22002/gtpbn-cer28
title: C. crescentus NA1000 Tad pilus

description: C. crescentus NA1000 Tad pilus project. The goad is to get an STA of the Tad pilus secretion system.
description: <strong>Tilt Series Date:</strong> 2019-08-17</p>
<strong>Data Taken By:</strong> Steven Wang</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: 3°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -6.0 μm,  magnification: 26000x. </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> None</p>
<strong>Collaborators and Roles:</strong> Patrick Viollier and Lujia Zhang</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Swarmer cells purified using Percoll (colloidal silica). Cultured using M2G media.</p>
<strong>Sample Preparation:</strong> 10 nm gold beads. Blotting force 4, blotting time 4, draining time 1. Quantifoil copper grids.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/swy2019-08-17-163/rawdata/</p>caulobacter_na1000_wt_164_af.mrc,  Tilt Series (Pixel Size 0.336 nm), 3.9 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        caulobacter_na1000_wt_164_af.mrc.mdoc,  811.0 B  
        
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DOI: 10.5281/zenodo.15211656
title: Predicted historic oxygen deficiency areas in the western Baltic Sea

description: The provided dataset includes near-bottom oxygen measurements (observations deeper than 10 m) in the months from August to October in the period from 1902-1969 from the western Baltic Sea (57.5 - 53.5 N° and 9.2- 15 E°). It serves as basis to predict historic oxygen deficiency areas in the period from 1949-1969 with a generalized additive model (GAM) and a machine learning model (GPBoost) as presented by Piehl et al. (2025). These data originate from ICES, including coastal data from national sources (Leibniz Institute for Baltic Sea Research Warnemünde, (IOW), Danish EPA (Miljøstyrelsen), and Swedish Meteorological and Hydrological Institute (SMHI)).

The provided nc-files include the multi-annual averaged (1949-1969) modelled near-bottom oxygen concentrations averaged over the critical period from August to October by three different approaches, the generalized additive model (GAM), the biogeochemical model (ERGOM), and the machine learning model (GPBoost). The nc-files were produced using the software R (https://www.R-project.org/) for the GAM and GPBoost results and CDO (https://doi.org/10.5281/zenodo.10020800) for the ERGOM results.
DOI: 10.5281/zenodo.15211657
title: Predicted historic oxygen deficiency areas in the western Baltic Sea

description: The provided dataset includes near-bottom oxygen measurements (observations deeper than 10 m) in the months from August to October in the period from 1902-1969 from the western Baltic Sea (57.5 - 53.5 N° and 9.2- 15 E°). It serves as basis to predict historic oxygen deficiency areas in the period from 1949-1969 with a generalized additive model (GAM) and a machine learning model (GPBoost) as presented by Piehl et al. (2025). These data originate from ICES, including coastal data from national sources (Leibniz Institute for Baltic Sea Research Warnemünde, (IOW), Danish EPA (Miljøstyrelsen), and Swedish Meteorological and Hydrological Institute (SMHI)).

The provided nc-files include the multi-annual averaged (1949-1969) modelled near-bottom oxygen concentrations averaged over the critical period from August to October by three different approaches, the generalized additive model (GAM), the biogeochemical model (ERGOM), and the machine learning model (GPBoost). The nc-files were produced using the software R (https://www.R-project.org/) for the GAM and GPBoost results and CDO (https://doi.org/10.5281/zenodo.10020800) for the ERGOM results.
DOI: 10.22002/jdz2f-59w62
title: Legionella cells for the flagell

description: Raw data files of Legionella cells for the flagell
description: <strong>Tilt Series Date:</strong> 2018-03-13</p>
<strong>Data Taken By:</strong> Mohammed Kaplan</p>
<strong>Species / Specimen:</strong> Legionella pneumophila</p>
<strong>Strain:</strong> Philadelphia-1_Lp02</p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 90.0 eV/Å²,  defocus: -8.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSF Tomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> RAPTOR</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Samples were grown in LB overnight.</p>
<strong>Sample Preparation:</strong> Grids were prepared from an overnight LB culture.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mka2018-03-13-42/rawdata/</p>Legionella_flagella15.mrc,  Tilt Series (Pixel Size 0.39 nm), 1.7 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        Legionella_flagella15_full.rec,  Reconstruction (Pixel Size 1.56 nm), 444.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.7ytmx2
title: Occurrence Download

description: A dataset containing 59 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Fumaria officinalis",
 "Country is Argentina",
 "HasCoordinate is true"
 ]
}

 The dataset includes 59 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045268-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/6adt7-q6230
title: Legionella delta DotOB

description: DotF-GFP background
description: <strong>Tilt Series Date:</strong> 2019-02-13</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: (-60.0°, 60.0°), step: 2°, constant angular increment, dosage: 100.0 eV/Å²,  defocus: -5.0 μm,  magnification: 53000x. </p>
<strong>Microscope:</strong> Caltech Titan Krios</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Joseph Vogel</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Early stationary phase</p>
<strong>Sample Preparation:</strong> 10 nm gold beads, broad vitrobot, R2/2 200 mesh copper quantifoil grids</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-02-13-30/rawdata/</p>20190213_deltaOB_18.mrc,  Tilt Series (Pixel Size 0.27 nm), 1.7 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        20190213_deltaOB_18_full.rec,  Reconstruction (Pixel Size 1.08 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ylx2019-02-13-30/3dimage_101435/20190213_deltaOB_18_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.ws7vf2
title: Occurrence Download

description: A dataset containing 56 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Fumaria officinalis",
 "Country is Belarus",
 "HasCoordinate is true"
 ]
}

 The dataset includes 56 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045269-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/m638g-hx505
title: Caulobacter delta-CpaF

description: Raw data files of Caulobacter delta-CpaF
description: <strong>Tilt Series Date:</strong> 2019-01-11</p>
<strong>Data Taken By:</strong> Steven Wang</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: 1.0°, constant angular increment, dosage: 183.0 eV/Å²,  defocus: -6.0 μm,  magnification: 42000x. </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> iMOD</p>
<strong>Collaborators and Roles:</strong> Patrick Viollier</p>
<strong>Purification / Growth Conditions / Treatment:</strong> 28 degrees celsius</p>
<strong>Sample Preparation:</strong> plunge-freezing</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/swy2019-01-11-1/rawdata/</p>targ21.mrc,  Tilt Series (Pixel Size 0.351 nm), 910.8 MB  
        
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        > <i class="download icon"></i> Download </a></p>

        targ21.rec,  Reconstruction (Pixel Size 1.404 nm), 889.0 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/swy2019-01-11-1/3dimage_100939/targ21.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/zjwjd-66r11
title: Caulobacter crescentus

description: Raw data files of Caulobacter crescentus
description: <strong>Tilt Series Date:</strong> 2018-11-14</p>
<strong>Data Taken By:</strong> Lujia Zhang</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: 1.0°, constant angular increment, dosage: 252.8 eV/Å²,  defocus: -10.0 μm,  magnification: 27500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> SerialEM</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> For the research of pilus, WT</p>
<strong>Purification / Growth Conditions / Treatment:</strong> swarmer cell, PVP</p>
<strong>Sample Preparation:</strong> force 4, time 6, humidity 100%, temp. 22</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-11-14-39/rawdata/</p>targ39.mrc,  Tilt Series (Pixel Size 0.3712 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        targ39_full.rec,  Reconstruction (Pixel Size 1.4848 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/lza2018-11-14-39/3dimage_99714/targ39_full.rec"
        > <i class="download icon"></i> Download </a></p>