cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.22002/9damr-zf917
title: Hippocampal Neurons (cultured)

description: Plunge frozen at DIV 14
description: <strong>Tilt Series Date:</strong> 2014-10-18</p>
<strong>Data Taken By:</strong> Matt Swulius</p>
<strong>Species / Specimen:</strong> Rat Hippocampal Neuron (cultured)</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 140.0 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> Xiawei Zhuang, Ruobo Zhou (cultured neurons and STORM imaging)</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Plunge frozen at DIV 14 Grids were treated with PDL prior to plating and 3 ul concentrated gold suspended in growth media was added to grid before freezing.</p>
<strong>Sample Preparation:</strong> Grids were plunge froze in a vitrobot at 95 % humidity adn 22 C. They were manually blotted from behind.</p>
description: Files available via S3 at ttps://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mst2014-10-18-2/rawdata/</p>101814_hipp_neuron_27kx0002.mrc,  Tilt Series (Pixel Size 0.41 nm), 3.4 GB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/mst2014-10-18-2/rawdata/101814_hipp_neuron_27kx0002.mrc"
        > <i class="download icon"></i> Download </a></p>

        101814_hipp_neuron_27kx0002_full.rec,  Reconstruction (Pixel Size 1.64 nm), 534.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/zgst1-a7b52
title: Chromogranin A-GFP

description: CLEM of chromogranin A-GFP expressing INS-1E cells
description: <strong>Tilt Series Date:</strong> 2014-08-26</p>
<strong>Data Taken By:</strong> Stephen Carter</p>
<strong>Species / Specimen:</strong> INS-1E Pancreatic Cells expressing Chromogranin A GFP</p>
<strong>Strain:</strong> </p>
<strong>Tilt Series Settings:</strong>  Single Axis, tilt range: (-60.0°, 60.0°), step: 1°, constant angular increment, dosage: 90.0 eV/Å²,  defocus: -10.0 μm,  magnification: 18000x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> Undefined</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Batchruntomo</p>
<strong>Collaborators and Roles:</strong> Zach Friedberg</p>
<strong>Purification / Growth Conditions / Treatment:</strong> INS-1E cells grown on gold finder grids and plunge frozen using the vitrobot III blotted both side pressure setting 1. Grids coated with fibronectin and 200 nm red fluorescent beads added to grids before freezing.</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/scd2014-08-26-2/rawdata/</p>tomogram2.mrc,  Tilt Series (Pixel Size 1.2 nm), 861.6 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/scd2014-08-26-2/rawdata/tomogram2.mrc"
        > <i class="download icon"></i> Download </a></p>

        tomogram2.rec,  Reconstruction (Pixel Size 4.8 nm), 443.6 MB  
        
<a role="button" class="ui compact mini button" href="https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/scd2014-08-26-2/3dimage_45803/tomogram2.rec"
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DOI: 10.22002/h40gk-x7e51
title: Helicobacter pylori 26695

description: Cells are sick. Don't have flagella. Only see partial motors.
description: <strong>Tilt Series Date:</strong> 2013-10-09</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: 200.0 eV/Å²,  defocus: -10.0 μm,  magnification: 22500x. </p>
<strong>Microscope:</strong> Caltech Polara</p>
<strong>Acquisition Software:</strong> UCSFTomo</p>
<strong>Upload Method:</strong> pipeline</p>
<strong>Processing Software Used:</strong> Raptor</p>
<strong>Collaborators and Roles:</strong> Cell prepared by Lee Rettberg.</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells grown in Brucella broth (Fluka) + 10% heat inactivated fetal bovine serum at 37 degrees + 5% CO2, OD600=0.4</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 R2/2 200</p>
description: Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/ycw2013-10-09-27/rawdata/</p>20131009_Hpylori_26695_BB_10027.mrc,  Tilt Series (Pixel Size 0.48 nm), 3.7 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        20131009_Hpylori_26695_BB_10027_part131_64.rec,  Reconstruction (Pixel Size 1.92 nm), 712.7 MB  
        
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DOI: 10.15468/dl.9pve8r
title: Occurrence Download

description: A dataset containing 630 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lonicera guillonii"
 ]
}

 The dataset includes 630 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002685-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/5cf88337tx.1
title: Discovery of human gut phage-encoded Anti-CRISPR proteins unveils diverse mechanisms for phages to evade host immunity

description: This collection of Supplementary Tables provides comprehensive datasets and analyses supporting the systematic identification and characterization of CRISPR-Cas systems and anti-CRISPR (Acr) proteins in the human gut microbiome. Tables S1–S7 and S10 detail the detection, classification, and phylogenetic analysis of Class 1 and Class 2 CRISPR-Cas systems—including Cas9 orthologs—within the UHGG database. Tables S9 and S11 document spacer–virus connections between UHGG and GVD, enabling the prediction of phage-encoded Acrs. Tables S12–S14 summarize Acr candidate selection, codon optimization, and library construction. Functional validation data for Acrs targeting six Type II-Cas9 systems (Spy-, Sa-, St1-, St3-, Fn-, and NmCas9) are presented in Tables S16–S22, with a non-redundant Acr set provided in Table S22. Finally, structural analyses, including fold similarity and the GutAcraca family, are summarized in Tables S24–S26.
Table S1. Class 1 CRISPR-Cas systems detected in UHGG, related to Figure 1A
Table S2. Class 2 CRISPR-Cas systems detected in UHGG, related to Figure 1A, B
Table S3. Type I CRISPR-Cas systems with Cas3 detected in UHGG, related to Figure 1A
Table S4. Type III CRISPR-Cas systems with Cas10 detected in UHGG, related to Figure 1A
Table S5. Distribution of type II, V, and VI CRISPR-Cas systems from Class 2 across microbial classes, related to Figure 1B
Table S6. Cas9 CDSs detected in UHGG, related to Figure 1C. Cas9_subfamily were obtained from UniProt according to UniProtKB_Entry annotated by UHGG. 
Table S7. Non-redundant Cas9 CDSs used to construct the phylogenetic tree, related to Figure 1C
Table S9. Connections between CRISPR spacers from UHGG and viral contigs from GVD through CRISPR-spacer blastn matches, related to Figure 2A and Figure S1
Table S10. Non-redundant Cas9 CDSs used to construct the phylogenetic tree, related to Figure S1
Table S11. Viral contigs in GVD which had CRISPR spacer matching with microbial genomes in UHGG carrying Cas9, related to Figure 2A
Table S12. Acr candidates with amino acid sequence, related to Figure 2A
Table S13. Selecting Acr candidates for DNA sequence codon optimization, related to Figure 2B
Table S14. Oligos design of Acr candidate library, related to Figure 2B
Table S16. Acrs of SpyCas9, related to Figure S3A, B 
Table S17. Acrs of SaCas9, related to Figure S3A, B
Table S18. Acrs of St1Cas9, related to Figure S3A, B
Table S19. Acrs of St3Cas9, related to Figure S3A, B
Table S20. Acrs of FnCas9, related to Figure S3A, B
Table S21. Acrs of NmCas9, related to Figure S3A, B
Table S22. 651 non-redundant Acrs in total, related to Figure 4A, B
Table S24. Structural similarity matrix of Acrs, related to Figure 4A, B and Figure S5B
Table S25. Members of GutAcraca, related to Figure 4B
Table S26. GutAcracas structural similarity in the AlphaFold database, related to Figure 5N
DOI: 10.17632/8z98xdkgxb
title: Biogeochemical Transformation of Organic Matter with Depth in Mountain Peatlands

description: This dataset primarily characterizes the depth distribution of carbon and nitrogen elements, along with their compositional profiles, across four typical mid-high latitude mountainous peatlands.
DOI: 10.17632/8z98xdkgxb.1
title: Biogeochemical Transformation of Organic Matter with Depth in Mountain Peatlands

description: This dataset primarily characterizes the depth distribution of carbon and nitrogen elements, along with their compositional profiles, across four typical mid-high latitude mountainous peatlands.
DOI: 10.17632/23jm4wbzxv.2
title: Euthanasia AND Psychologists

description: Attitudes, Roles, and Competencies of Clinical Psychologists Regarding Euthanasia due to Unbearable Mental Suffering

This study examined the attitudes, roles, and competencies of clinical psychologists in Flanders toward euthanasia in cases of UMS euthanasia. A total of 242 clinical psychologists participated in the survey. This study employed a cross-sectional quantitative design using an online questionnaire.

Overall, results indicated that clinical psychologists hold a predominantly positive attitude toward UMS euthanasia. The mean total score was 79.13, which is above the neutral midpoint score of 63. 
Psychologists also endorsed their role in decision‑making and exploring alternatives (87.2%). Almost all (96.3%) felt responsible for discussing alternatives prior to a decision. 
In terms of professional competencies, nearly half of the clinical psychologists in this study (47.1%) reported insufficient knowledge to adequately handle euthanasia requests, while 37.6% indicated that they lacked the necessary practical skills. Additionally, an overwhelming majority (94.2%) felt that euthanasia in the context of unbearable mental suffering was not adequately covered during their formal education or training.
DOI: 10.17632/wrzkcjg8zc
title: Gender quotas and politicians' education

description: Here you can find the datasets and Stata codes to replicate the tables and figures in "Gender quotas and politicians' education", authored by Francesca Passarelli and David Boto-García.
DOI: 10.17632/wrzkcjg8zc.3
title: Gender quotas and politicians' education

description: Here you can find the datasets and Stata codes to replicate the tables and figures in "Gender quotas and politicians' education", authored by Francesca Passarelli and David Boto-García.
DOI: 10.15468/dl.qp5hrj
title: Occurrence Download

description: A dataset containing 11242 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Guatemala",
 "DatasetKey is UTA Amphibians"
 ]
}

 The dataset includes 11242 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021356-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17611/dp/23015653
title: Moment Tensor for September 13, 2024 MW 5.1 (GCMT) EAST OF NORTH ISLAND, N.Z.
DOI: 10.17611/dp/23015659
title: Moment Tensor for September 13, 2024 MW 5.0 (GCMT) EAST OF NORTH ISLAND, N.Z.
DOI: 10.17611/dp/23015665
title: Moment Tensor for September 13, 2024 MW 4.9 (GCMT) XIZANG
DOI: 10.17611/dp/23015671
title: Moment Tensor for September 13, 2024 MW 5.0 (GCMT) NEAR COAST OF GUATEMALA
DOI: 10.17611/dp/23015677
title: Moment Tensor for September 13, 2024 MW 5.8 (GCMT) RYUKYU ISLANDS, JAPAN
DOI: 10.17611/dp/23015683
title: Moment Tensor for September 14, 2024 MW 5.0 (GCMT) VANUATU ISLANDS
DOI: 10.17611/dp/23015689
title: Moment Tensor for September 14, 2024 MW 5.2 (GCMT) SOUTH OF KERMADEC ISLANDS
DOI: 10.17611/dp/23015695
title: Moment Tensor for September 14, 2024 MW 5.0 (GCMT) CENTRAL MID-ATLANTIC RIDGE
DOI: 10.17611/dp/23015736
title: Moment Tensor for September 14, 2024 MW 5.5 (GCMT) SOUTH OF MARIANA ISLANDS
DOI: 10.17611/dp/23015742
title: Moment Tensor for September 14, 2024 MW 5.2 (GCMT) NORTHERN SUMATRA, INDONESIA
DOI: 10.17611/dp/23015748
title: Moment Tensor for September 15, 2024 MW 4.9 (GCMT) CATAMARCA PROVINCE, ARGENTINA
DOI: 10.17611/dp/23015754
title: Moment Tensor for September 15, 2024 MW 5.4 (GCMT) NEAR COAST OF GUATEMALA
DOI: 10.17611/dp/23015760
title: Moment Tensor for September 15, 2024 MW 5.0 (GCMT) VANUATU ISLANDS
DOI: 10.17611/dp/23015766
title: Moment Tensor for September 15, 2024 MW 4.7 (GCMT) SOUTHERN XINJIANG, CHINA
DOI: 10.17611/dp/23015772
title: Moment Tensor for September 15, 2024 MW 5.0 (GCMT) JAVA, INDONESIA
DOI: 10.17611/dp/23015778
title: Moment Tensor for September 15, 2024 MW 5.1 (GCMT) ANDREANOF ISLANDS, ALEUTIAN IS.
DOI: 10.17611/dp/23015784
title: Moment Tensor for September 15, 2024 MW 5.5 (GCMT) BORNEO
DOI: 10.17611/dp/23015790
title: Moment Tensor for September 15, 2024 MW 4.7 (GCMT) SOUTH OF TONGA ISLANDS
DOI: 10.17611/dp/23015796
title: Moment Tensor for September 15, 2024 MW 5.1 (GCMT) SOUTHEAST INDIAN RIDGE
DOI: 10.17611/dp/23015802
title: Moment Tensor for September 15, 2024 MW 6.5 (GCMT) QUEEN CHARLOTTE ISLANDS REGION
DOI: 10.17611/dp/23015808
title: Moment Tensor for September 16, 2024 MW 5.1 (GCMT) QUEEN CHARLOTTE ISLANDS REGION
DOI: 10.17611/dp/23015814
title: Moment Tensor for September 16, 2024 MW 5.4 (GCMT) VANUATU ISLANDS
DOI: 10.17611/dp/23015820
title: Moment Tensor for September 16, 2024 MW 5.1 (GCMT) SOUTHEAST OF EASTER ISLAND
DOI: 10.17611/dp/23015826
title: Moment Tensor for September 16, 2024 MW 6.4 (GCMT) MARIANA ISLANDS REGION
DOI: 10.17611/dp/23015832
title: Moment Tensor for September 16, 2024 MW 5.5 (GCMT) SOUTHEAST OF SHIKOKU, JAPAN
DOI: 10.15468/dl.ysq855
title: Occurrence Download

description: A dataset containing 2199412 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Chlorophyta"
 ]
}

 The dataset includes 2199412 records from 2635 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004660-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3s2p2r
title: Occurrence Download

description: A dataset containing 130 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Xiphophorus nigrensis"
 ]
}

 The dataset includes 130 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005971-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.22002/mjssv-edg62
title: V. cholerae JAS290 delta-tcpS

description: Classical strain with ctxA deletionStrain name JAS290 (tcpS gene knockout)Cell harbors pMT5 plasmid (inducible toxT)
description: <strong>Tilt Series Date:</strong> 2016-08-07</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Vibrio cholerae</p>
<strong>Strain:</strong> O395-N1</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: -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 Gabriela Kovacikova</p>
<strong>Purification / Growth Conditions / Treatment:</strong> O/N cultures of Vibrio cholerae O395 N1 pMT5 grown in LB, 1 mM IPTG and 100 ug/mL ampicillin.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 3.5µl 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/ycw2016-08-07-6/rawdata/</p>20160807_YWC217_10006.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
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        20160807_YWC217_10006_part121_50.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
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DOI: 10.22002/msdcx-dy157
title: Thermococcus kodakarensis

description: flagella
description: <strong>Tilt Series Date:</strong> 2016-08-25</p>
<strong>Data Taken By:</strong> Debnath Ghosal</p>
<strong>Species / Specimen:</strong> Thermococcus kodakarensis</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: 160.0 eV/Å²,  defocus: -6.0 μm,  magnification: 27500x. </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> Strain sent to us by Robert Gunsalus, UCLA. Data collected and processed by Ki Woo Kim and Debnath Ghosal</p>
<strong>Purification / Growth Conditions / Treatment:</strong> Cells were grown in standard Tk medium with starch and sulfur for one day.</p>
<strong>Sample Preparation:</strong> 8 grids were frozen for the Tk strain. Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 3.5 sec. Wait time 8 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/dga2016-08-25-44/rawdata/</p>Tk_250820160044.mrc,  Tilt Series (Pixel Size 0.39 nm), 2.3 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        Tk_250820160044_full.rec,  Reconstruction (Pixel Size 1.56 nm), 445.4 MB  
        
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        > <i class="download icon"></i> Download </a></p>
DOI: 10.22002/evz1r-vx438
title: V. cholerae JAS290 delta-tcpS

description: Classical strain with ctxA deletionStrain name JAS290 (tcpS gene knockout)Cell harbors pMT5 plasmid (inducible toxT)
description: <strong>Tilt Series Date:</strong> 2016-08-07</p>
<strong>Data Taken By:</strong> Yi-Wei Chang</p>
<strong>Species / Specimen:</strong> Vibrio cholerae</p>
<strong>Strain:</strong> O395-N1</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: -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 Gabriela Kovacikova</p>
<strong>Purification / Growth Conditions / Treatment:</strong> O/N cultures of Vibrio cholerae O395 N1 pMT5 grown in LB, 1 mM IPTG and 100 ug/mL ampicillin.</p>
<strong>Sample Preparation:</strong> Vitrobot (MK iv) settings: 100% humidity, 3.5µl 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/ycw2016-08-07-31/rawdata/</p>20160807_YWC217_10031.mrc,  Tilt Series (Pixel Size 0.39 nm), 3.4 GB  
        
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        > <i class="download icon"></i> Download </a></p>

        20160807_YWC217_10031_full.rec,  Reconstruction (Pixel Size 1.56 nm), 534.5 MB  
        
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        > <i class="download icon"></i> Download </a></p>