cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/f3dnb-b5n11
title: Pseudomonas full length aer2

description: Pseudomonas full length aer2 on plasmid, induction with arabinose
description: <strong>Tilt Series Date:</strong> 2015-07-29</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Pseudomonas aeruginosa</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -8.0 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> Raptor</p>
<strong>Collaborators and Roles:</strong> Kylie Watts</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-07-29-13/rawdata/</p>Aer2inducedJuly0007.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/aba2015-07-29-13/rawdata/Aer2inducedJuly0007.mrc"
        > <i class="download icon"></i> Download </a></p>

        Aer2inducedJuly0007_full.rec,  Reconstruction (Pixel Size 1.28 nm), 712.7 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-07-29-13/3dimage_59819/Aer2inducedJuly0007_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.azb64r
title: Occurrence Download

description: A dataset containing 58 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tragopan satyra",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 58 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046919-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/v5k5t-f3g29
title: P. gingivalis ABK mutant

description: Raw data files of P. gingivalis ABK mutant
description: <strong>Tilt Series Date:</strong> 2017-12-12</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: 1°, constant angular increment, dosage: 200.0 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> Eric Reynolds</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2017-12-12-6/rawdata/</p>Pgin5_0006.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2017-12-12-6/rawdata/Pgin5_0006.mrc"
        > <i class="download icon"></i> Download </a></p>

        Pgin5_0006_full.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2017-12-12-6/3dimage_91201/Pgin5_0006_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/asfdp-txe10
title: E. coli pED208_6um

description: Raw data files of E. coli pED208_6um
description: <strong>Tilt Series Date:</strong> 2015-01-17</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </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>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>Purification / Growth Conditions / Treatment:</strong> cells were grown in LB o/n</p>
<strong>Sample Preparation:</strong> Vitrobot</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-9/rawdata/</p>ped208_6um0005.mrc,  Tilt Series (Pixel Size 0.5 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-9/rawdata/ped208_6um0005.mrc"
        > <i class="download icon"></i> Download </a></p>

        ped208_6um0005_part121_11.rec,  Reconstruction (Pixel Size 2.0 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-9/3dimage_50874/ped208_6um0005_part121_11.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.21954/ou.rd.29983387
title: REDEFINE (UK): Interview with the representative P4 of a research institute

description: This document forms part of the REDEFINE research project (ERC Grant No. 885475), funded by the European Research Council. REDEFINE focuses on the dynamics and effects of China’s large-scale infrastructure investments in Europe, with a focus on Germany, Greece, Hungary, and the UK. Through multi-sited fieldwork and interdisciplinary analysis, the project seeks to understand the evolving relations between China and Europe and to assess what this means for politics, economic growth and development more broadly.This anonymised interview transcript presents a semi-structured interview conducted with the representative P4 of a research institute. The conversation contributes to REDEFINE’s case study of Chinese investment in Airport City Manchester. All identifying details have been removed, and informed consent for participation and data use was obtained.
DOI: 10.21954/ou.rd.29983387.v1
title: REDEFINE (UK): Interview with the representative P4 of a research institute

description: This document forms part of the REDEFINE research project (ERC Grant No. 885475), funded by the European Research Council. REDEFINE focuses on the dynamics and effects of China’s large-scale infrastructure investments in Europe, with a focus on Germany, Greece, Hungary, and the UK. Through multi-sited fieldwork and interdisciplinary analysis, the project seeks to understand the evolving relations between China and Europe and to assess what this means for politics, economic growth and development more broadly.This anonymised interview transcript presents a semi-structured interview conducted with the representative P4 of a research institute. The conversation contributes to REDEFINE’s case study of Chinese investment in Airport City Manchester. All identifying details have been removed, and informed consent for participation and data use was obtained.
DOI: 10.22002/a3myk-ra351
title: H.pylori 26695 delta-PAI

description: Grid box YWC258
description: <strong>Tilt Series Date:</strong> 2017-07-10</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: 160.0 eV/Å²,  defocus: -6.0 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 and sample prepared by Carrie Shaffer</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-07-10-51/rawdata/</p>20170710_YWC258_10054.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-07-10-51/rawdata/20170710_YWC258_10054.mrc"
        > <i class="download icon"></i> Download </a></p>

        20170710_YWC258_10054.rec,  Reconstruction (Pixel Size 1.56 nm), 1.1 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-07-10-51/3dimage_86779/20170710_YWC258_10054.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/4j79y-0kw77
title: P. aeruginosa T6SS minicell

description: Pseudomonas JT1599Grid box YWC247
description: <strong>Tilt Series Date:</strong> 2017-04-14</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Pseudomonas aeruginosa</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, constant angular increment, dosage: 120.0 eV/Å²,  defocus: -6.0 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 from Jonida Toska at John Mekalanos lab</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-04-14-50/rawdata/</p>20170414_YWC247_10059.mrc,  Tilt Series (Pixel Size 0.39 nm), 2.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-04-14-50/rawdata/20170414_YWC247_10059.mrc"
        > <i class="download icon"></i> Download </a></p>

        20170414_YWC247_10059_part81_13.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-04-14-50/3dimage_83742/20170414_YWC247_10059_part81_13.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/bj7e2-z5835
title: NR1769/R1-16 conjugation

description: Grid box YWC228NR1769/R1-16 conjugating with NR1769 skinny E. coli
description: <strong>Tilt Series Date:</strong> 2016-11-01</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1.5°, 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> Strain and sample prepared by Carrie Shaffer</p>
  ycw2016-11-01-42_slicer17114.jpg: r1-16 machine ycw2016-11-01-42_slicer17115.jpg: pilus
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-11-01-42/3dimage_79488/</p>20161101_YWC228_20003_full.rec,  Reconstruction (Pixel Size 1.92 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-11-01-42/3dimage_79488/20161101_YWC228_20003_full.rec"
        > <i class="download icon"></i> Download </a></p>

        20161101_YWC228_20003.mrc,  Tilt Series (Pixel Size 0.48 nm), 2.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2016-11-01-42/rawdata/20161101_YWC228_20003.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/7m801-nye81
title: E. coli pED208_6um

description: Raw data files of E. coli pED208_6um
description: <strong>Tilt Series Date:</strong> 2015-01-17</p>
<strong>Data Taken By:</strong> Elitza Tocheva</p>
<strong>Species / Specimen:</strong> Escherichia coli</p>
<strong>Strain:</strong> </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>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>Purification / Growth Conditions / Treatment:</strong> cells were grown in LB o/n</p>
<strong>Sample Preparation:</strong> Vitrobot</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-33/rawdata/</p>ped208_6um0029.mrc,  Tilt Series (Pixel Size 0.5 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-33/rawdata/ped208_6um0029.mrc"
        > <i class="download icon"></i> Download </a></p>

        ped208_6um0029_full.rec,  Reconstruction (Pixel Size 2.0 nm), 445.4 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/etl2015-01-17-33/3dimage_50923/ped208_6um0029_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/0azk1-7js46
title: H. pylori 26695 WT

description: grid box YWC259
description: <strong>Tilt Series Date:</strong> 2017-07-06</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: 180.0 eV/Å²,  defocus: -6.0 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 and sample prepared by Carrie Shaffer</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-07-06-7/rawdata/</p>20170706_YWC259_10008.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-07-06-7/rawdata/20170706_YWC259_10008.mrc"
        > <i class="download icon"></i> Download </a></p>

        20170706_YWC259_10008.rec,  Reconstruction (Pixel Size 1.56 nm), 1.1 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-07-06-7/3dimage_85649/20170706_YWC259_10008.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/jjjje-tbd60
title: HeLa cells

description: looking for midbodies
description: <strong>Tilt Series Date:</strong> 2015-02-09</p>
<strong>Data Taken By:</strong> Rasika Ramdasi</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: 180.0 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> UCSF tomo</p>
<strong>Sample Preparation:</strong> HeLa cells_siRNA NUP 153+ thymidine 2mM, 14 h</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2015-02-09-5/rawdata/</p>atlas20001.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/rra2015-02-09-5/rawdata/atlas20001.mrc"
        > <i class="download icon"></i> Download </a></p>

        atlas20001_full.rec,  Reconstruction (Pixel Size 1.92 nm), 623.6 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/rra2015-02-09-5/3dimage_51618/atlas20001_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/4rd91-6pg27
title: M. xanthus PilY1.3-sfGFP

description: PilY1.3-sfGFP (SA7661+pMAT321)Grid box YWC262
description: <strong>Tilt Series Date:</strong> 2017-11-27</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: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 180.0 eV/Å²,  defocus: -6.0 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 form Lotte Sogaard-Andersen</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-11-27-106/rawdata/</p>20171127_YWC262_10109.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-11-27-106/rawdata/20171127_YWC262_10109.mrc"
        > <i class="download icon"></i> Download </a></p>

        20171127_YWC262_10109_full.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2017-11-27-106/3dimage_90743/20171127_YWC262_10109_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/c3fp1-e5786
title: Azospirillum WT

description: prepared by Andreas
description: <strong>Tilt Series Date:</strong> 2015-08-25</p>
<strong>Data Taken By:</strong> Ariane Briegel</p>
<strong>Species / Specimen:</strong> Azospirillum brasilense</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 160.0 eV/Å²,  defocus: -8.0 μm,  magnification: 33000x. </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> Gladys Alexandre</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-08-25-23/3dimage_60669/</p>AK23August0022_full.rec,  Reconstruction (Pixel Size 1.32 nm), 688.9 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-08-25-23/3dimage_60669/AK23August0022_full.rec"
        > <i class="download icon"></i> Download </a></p>

        AK23August0022.mrc,  Tilt Series (Pixel Size 0.33 nm), 3.3 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/aba2015-08-25-23/rawdata/AK23August0022.mrc"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.17632/sjts2m64fd
title: Iterative pruning of non-phenotyped non-parent animals and back-solving of their solutions followed by the genetic evaluation analysis

description: Many animals entering the genetic evaluation analysis do not contribute any information (non-phenotyped) and they do not receive any progeny information (not parent to any phenotyped descendants). If these animals are removed from the analysis, the number of equations to solve and the computational demands are reduced. Using an example data and the R code (the attached files; the data itself is created by the R code), it is shown how to prune the pedigree by iteratively discarding non-phenotyped non-parent animals.

The evaluation of pruned animals is necessary. However, the evaluation (i.e., breeding value and its reliability) of these animals is fully conditional to their parent(s). Therefore, their evaluation can be obtained at a much lower computational cost out of the equation system. The attached data and R code show this procedure (called back-solving).
DOI: 10.22002/q0ghg-bqf95
title: P. gingivalis wild type

description: Raw data files of P. gingivalis wild type
description: <strong>Tilt Series Date:</strong> 2020-11-06</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: 170.0 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> Raptor</p>
<strong>Collaborators and Roles:</strong> Eric Reynolds</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Grown and harvested from plates</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2020-11-06-131/rawdata/</p>PginWT9_130.mrc,  Tilt Series (Pixel Size 0.333 nm), 1.9 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2020-11-06-131/rawdata/PginWT9_130.mrc"
        > <i class="download icon"></i> Download </a></p>

        PginWT9_130_full.rec,  Reconstruction (Pixel Size 1.332 nm), 737.3 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/gca2020-11-06-131/3dimage_115232/PginWT9_130_full.rec"
        > <i class="download icon"></i> Download </a></p>
DOI: 10.15468/dl.duwrd3
title: Occurrence Download

description: A dataset containing 16165 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is one of (EOD – eBird Observation Dataset, iNaturalist Research-grade Observations)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Geometry POLYGON((-80.4399 43.45367,-80.37948 43.45367,-80.37948 43.4859,-80.4399 43.4859,-80.4399 43.45367))"
 ]
}

 The dataset includes 16165 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046921-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/sjts2m64fd.2
title: Iterative pruning of non-phenotyped non-parent animals and back-solving of their solutions followed by the genetic evaluation analysis

description: Many animals entering the genetic evaluation analysis do not contribute any information (non-phenotyped) and they do not receive any progeny information (not parent to any phenotyped descendants). If these animals are removed from the analysis, the number of equations to solve and the computational demands are reduced. Using an example data and the R code (the attached files; the data itself is created by the R code), it is shown how to prune the pedigree by iteratively discarding non-phenotyped non-parent animals.

The evaluation of pruned animals is necessary. However, the evaluation (i.e., breeding value and its reliability) of these animals is fully conditional to their parent(s). Therefore, their evaluation can be obtained at a much lower computational cost out of the equation system. The attached data and R code show this procedure (called back-solving).