cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25451/flinders.29978242.v1
title: Synteny-aware functional annotation of bacteriophage genomes with Phynteny: Supplementary Information v.1.0

description: Supplementary information for the paper "Synteny-aware functional annotation of bacteriophage genomes with Phynteny" by Grigson et al. https://doi.org/10.1101/2025.07.28.667340
DOI: 10.25451/flinders.29978242
title: Synteny-aware functional annotation of bacteriophage genomes with Phynteny: Supplementary Information v.1.0

description: Supplementary information for the paper "Synteny-aware functional annotation of bacteriophage genomes with Phynteny" by Grigson et al. https://doi.org/10.1101/2025.07.28.667340
DOI: 10.15468/dl.j82zuf
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Fallopia convolvulus",
 "Country is Korea (Democratic People’s Republic of)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 7 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041473-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xmvb8e
title: Occurrence Download

description: A dataset containing 25 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Fallopia convolvulus",
 "Country is Mexico",
 "HasCoordinate is true"
 ]
}

 The dataset includes 25 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041475-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r8uktr
title: Occurrence Download

description: A dataset containing 11 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Fallopia convolvulus",
 "Country is Lesotho",
 "HasCoordinate is true"
 ]
}

 The dataset includes 11 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041474-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.4121/1ccdd6a2-110e-45f9-8c4d-e64843c54c92
title: Dataset for PhD thesis "Study of near-borehole thermo-hydro-mechanical processes"

description: This datasets are associated with the Ph.D thesis "Study of near-borehole thermo-hydro-mechanical processes".This datasets contain input and output files for simulations in Chap.3, Chap.4, Chap.5 and Chap.6. Chap.3 - 5 uses in-house code LAGAMINE, a geo-mechanical tool. Chap.6 uses the open-source code Computer Programs in Seismology. All output data used to produce the figures in the thesis are also included.
DOI: 10.4121/1ccdd6a2-110e-45f9-8c4d-e64843c54c92.v1
title: Dataset for PhD thesis "Study of near-borehole thermo-hydro-mechanical processes"

description: This datasets are associated with the Ph.D thesis "Study of near-borehole thermo-hydro-mechanical processes".This datasets contain input and output files for simulations in Chap.3, Chap.4, Chap.5 and Chap.6. Chap.3 - 5 uses in-house code LAGAMINE, a geo-mechanical tool. Chap.6 uses the open-source code Computer Programs in Seismology. All output data used to produce the figures in the thesis are also included.
DOI: 10.15468/dl.7ru7fg
title: Occurrence Download

description: A dataset containing 2889 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Fallopia convolvulus",
 "Country is Spain",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2889 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041476-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16938739
title: Processed MERFISH spatial transcriptomics dataset of mouse spinal cord (SOD1-G93A and control)

description: Description:This repository provides an AnnData .h5ad object with processed MERFISH data and metadata from our study: all_anndata_final_rotated_w_anno.h5ad

Data structure:





The normalized expression matrix is stored in .X.




The raw counts matrix is stored in the counts layer.




Key metadata are stored as observation annotations (.obs) and include:





slide - MERSCOPE run identifier




slide_section - individual tissue section identifier




region - broad spinal cord region (e.g., Lumbar, Cervical)




stage - disease stage (Control, Early, Mid, End)




cell_class - high-level cell type category (e.g., Astrocytes, Microglia/Macrophages, Cholinergic Neurons)




cholinergic_type - subclassification of cholinergic neurons (e.g., Alpha MNs, Gamma MNs, Gamma* MNs)




predicted.id - predicted alpha motor neuron subtype from label transfer (e.g., Slow-Firing, Intermediate, Fast-Firing, Early DAMN, Late DAMN)




DAMN_status - Disease-Associated Motor Neuron classification (DAMN vs. Non-DAMN)




reactive_microglia - boolean flag indicating reactive microglia/macrophages




reactive_or_wm_astrocytes - boolean flag indicating reactive/white-matter astrocytes
DOI: 10.5281/zenodo.16938738
title: Processed MERFISH spatial transcriptomics dataset of mouse spinal cord (SOD1-G93A and control)

description: Description:This repository provides an AnnData .h5ad object with processed MERFISH data and metadata from our study: all_anndata_final_rotated_w_anno.h5ad

Data structure:





The normalized expression matrix is stored in .X.




The raw counts matrix is stored in the counts layer.




Key metadata are stored as observation annotations (.obs) and include:





slide - MERSCOPE run identifier




slide_section - individual tissue section identifier




region - broad spinal cord region (e.g., Lumbar, Cervical)




stage - disease stage (Control, Early, Mid, End)




cell_class - high-level cell type category (e.g., Astrocytes, Microglia/Macrophages, Cholinergic Neurons)




cholinergic_type - subclassification of cholinergic neurons (e.g., Alpha MNs, Gamma MNs, Gamma* MNs)




predicted.id - predicted alpha motor neuron subtype from label transfer (e.g., Slow-Firing, Intermediate, Fast-Firing, Early DAMN, Late DAMN)




DAMN_status - Disease-Associated Motor Neuron classification (DAMN vs. Non-DAMN)




reactive_microglia - boolean flag indicating reactive microglia/macrophages




reactive_or_wm_astrocytes - boolean flag indicating reactive/white-matter astrocytes
DOI: 10.21227/8fmm-ac18
title: "Antarctic geophysical and remote sensing data"

description: "Dataset AbstractThis dataset contains geophysical and satellite remote sensing data collected from 2018 to 2024 at the Barton Peninsula, King George Island, Antarctica. The data was acquired to comprehensively analyze the effects of climate change on the surface and subsurface environments.The main data components are as follows:Electrical Resistivity Tomography (ERT) Data: This data was acquired at two-year intervals (February 2018, 2020, 2022, and 2024) along a 40-meter survey line. A Wenner array was used with 40 electrodes spaced 1 meter apart.Ground-Penetrating Radar (GPR) Data: This data was acquired along the same survey line as the ERT surveys, at 0.1-meter intervals. A 500-MHz frequency antenna was used, and a common-midpoint survey was conducted to determine the radio-wave velocity.KOMPSAT-3A SAR (K3A) Data: This satellite imagery was used to analyze ground surface changes from 2017 to 2024. High-resolution multispectral imagery from the AEISS-A sensor was utilized, with data from the red (R) and near-infrared (NIR) bands used to calculate the Normalized Difference Vegetation Index (NDVI).This dataset will be a valuable resource for researchers interested in polar cryosphere and geological studies. It provides foundational data for integrated analysis of surface-subsurface interactions and is expected to contribute to improving the accuracy of future climate change prediction models."
DOI: 10.6084/m9.figshare.29978308
title: Supplementary Material for: MedReadr: Development and evaluation of an in-browser, rules-based natural language processing algorithm to estimate the reliability of consumer health articles

description: Abstract
Introduction:
The internet is a major source of medical information for patients, yet the quality of online health content remains highly variable. Existing assessment tools are often labor-intensive, unvalidated, or limited in scope. We developed and validated MedReadr, an in-browser, rules-based natural language processing (NLP) algorithm that automatically estimates the reliability of consumer health articles for patients and providers.
Methods:
Thirty-five consumer medical articles were independently assessed by two reviewers using validated manual scoring systems (QUEST and Sandvik). Interrater reliability was evaluated with Cohen’s κ, and metrics with κ &gt; 0.6 were selected for model fitting. MedReadr extracted key features from article text and metadata using predefined NLP rules. A multivariable linear regression model was trained to predict manual reliability scores, with internal validation performed on an independent set of 20 articles.
Results:
High interrater reliability was achieved across all QUEST and most Sandvik domains (Cohen’s κ &gt; 0.6). The MedReadr model demonstrated strong performance, achieving R² = 0.90 and RMSE = 0.05 on the development set, and R² = 0.83 and RMSE = 0.07 on the validation set. All model coefficients were statistically significant (p &lt; 0.05). Key predictive features included currency and reference scores, sentiment polarity, engagement content, and the frequency of provider contact, intervention endorsement, intervention mechanism, and intervention uncertainty phrases.
Conclusion:
MedReadr demonstrates that structural reliability scoring of online health articles can be automated using a transparent, rules-based NLP approach. Applied to English-language articles from mainstream search results on common medical conditions, the tool showed strong agreement with validated manual scoring systems. However, it has only been validated on a narrow scope of content and is not designed to analyze search results for specific questions or detect misinformation. Future research should assess its performance across a broader range of web content and evaluate whether its integration improves patient comprehension, digital health literacy, and clinician-patient communication.
DOI: 10.6084/m9.figshare.29978308.v1
title: Supplementary Material for: MedReadr: Development and evaluation of an in-browser, rules-based natural language processing algorithm to estimate the reliability of consumer health articles

description: Abstract
Introduction:
The internet is a major source of medical information for patients, yet the quality of online health content remains highly variable. Existing assessment tools are often labor-intensive, unvalidated, or limited in scope. We developed and validated MedReadr, an in-browser, rules-based natural language processing (NLP) algorithm that automatically estimates the reliability of consumer health articles for patients and providers.
Methods:
Thirty-five consumer medical articles were independently assessed by two reviewers using validated manual scoring systems (QUEST and Sandvik). Interrater reliability was evaluated with Cohen’s κ, and metrics with κ &gt; 0.6 were selected for model fitting. MedReadr extracted key features from article text and metadata using predefined NLP rules. A multivariable linear regression model was trained to predict manual reliability scores, with internal validation performed on an independent set of 20 articles.
Results:
High interrater reliability was achieved across all QUEST and most Sandvik domains (Cohen’s κ &gt; 0.6). The MedReadr model demonstrated strong performance, achieving R² = 0.90 and RMSE = 0.05 on the development set, and R² = 0.83 and RMSE = 0.07 on the validation set. All model coefficients were statistically significant (p &lt; 0.05). Key predictive features included currency and reference scores, sentiment polarity, engagement content, and the frequency of provider contact, intervention endorsement, intervention mechanism, and intervention uncertainty phrases.
Conclusion:
MedReadr demonstrates that structural reliability scoring of online health articles can be automated using a transparent, rules-based NLP approach. Applied to English-language articles from mainstream search results on common medical conditions, the tool showed strong agreement with validated manual scoring systems. However, it has only been validated on a narrow scope of content and is not designed to analyze search results for specific questions or detect misinformation. Future research should assess its performance across a broader range of web content and evaluate whether its integration improves patient comprehension, digital health literacy, and clinician-patient communication.
DOI: 10.15468/dl.btqtqq
title: Occurrence Download

description: A dataset containing 93 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Argentina",
 "HasCoordinate is true"
 ]
}

 The dataset includes 93 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041478-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cumbrc
title: Occurrence Download

description: A dataset containing 72 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Belarus",
 "HasCoordinate is true"
 ]
}

 The dataset includes 72 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041479-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xbupb7
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Brazil",
 "HasCoordinate is true"
 ]
}

 The dataset includes 17 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041480-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.18150/mzo9tk
title: Digital terrain model of Sinkhole Babina1 map (Lubuskie, Western Poland)

description: Digital terrain model of the mapped sinkhole in the old "Przyjaźń Narodów - Szyb Babina" lignite mine in western Poland (Lubuskie). The localization of the object XY: 206452.78,417829.38 (EPSG 2180). The data were acquired by the Terrestrial Laser Scanning technique. The point cloud was classified and represents the 02 ground ISPRS.LAS class. The file should be used for educational, promotional, and research purposes with the citation provided.
DOI: 10.4121/fdcf5644-cad1-4ace-949a-a852a37ce86a
title: Analysis code belonging to manuscript "Temporal Stability of Need Satisfaction and Frustration Profiles and their Association with Motivational Functioning"

description: Analysis code belonging to the manuscript "Temporal Stability of Need Satisfaction and Frustration Profiles and their Association with Motivational Functioning"<br>The current study aimed to identify subpopulations of students with different combinations of need satisfaction and frustration, and assessed the extent to which such combinations (i.e., students’ individual profiles) remained stable over the course of about two months. We also examined how these profiles were associated with students’ autonomous motivation, controlled motivation, and amotivation. The following research questions guided the present study:1: Which subpopulations of students, characterized by different combinations of need-based experiences, exist in the present sample, taking into account the global and specific levels of their need-based experiences?2: To what extent is the pattern of subpopulations of students, and students’ individual membership in specific profiles, stable over time?3: How is membership to a specific profile associated with students’ autonomous motivation, controlled motivation, and amotivation?<br>Longitudinal design, bifactor ESEM, quantitative data (questionnaire data/ self-reports)
DOI: 10.4121/fdcf5644-cad1-4ace-949a-a852a37ce86a.v2
title: Analysis code belonging to manuscript "Temporal Stability of Need Satisfaction and Frustration Profiles and their Association with Motivational Functioning"

description: Analysis code belonging to the manuscript "Temporal Stability of Need Satisfaction and Frustration Profiles and their Association with Motivational Functioning"<br>The current study aimed to identify subpopulations of students with different combinations of need satisfaction and frustration, and assessed the extent to which such combinations (i.e., students’ individual profiles) remained stable over the course of about two months. We also examined how these profiles were associated with students’ autonomous motivation, controlled motivation, and amotivation. The following research questions guided the present study:1: Which subpopulations of students, characterized by different combinations of need-based experiences, exist in the present sample, taking into account the global and specific levels of their need-based experiences?2: To what extent is the pattern of subpopulations of students, and students’ individual membership in specific profiles, stable over time?3: How is membership to a specific profile associated with students’ autonomous motivation, controlled motivation, and amotivation?<br>Longitudinal design, bifactor ESEM, quantitative data (questionnaire data/ self-reports)
DOI: 10.15468/dl.6ck5zy
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Bulgaria",
 "HasCoordinate is true"
 ]
}

 The dataset includes 7 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041481-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wjbqze
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Chile",
 "HasCoordinate is true"
 ]
}

 The dataset includes 8 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041482-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3c7b6h
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Cyprus",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041483-250811113504898/datasets/export for details.
DOI: 10.15468/dl.v2sjag
title: Occurrence Download

description: A dataset containing 256 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is one of (CHN.11_1, CHN.17_1, CHN.18_1, CHN.19_1)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Grus japonensis",
 "Year 1970-2025"
 ]
}

 The dataset includes 256 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041485-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.srk6dg
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Hyphessobrycon nicolasi)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041484-250811113504898/datasets/export for details.
DOI: 10.18150/ootjvb
title: Bathymetric map of Afryka reservoir (Lubuskie, Western Poland)

description: The file contains a bathymetric map of the "Afryka" reservoir of the old "Przyjaźń Narodów - Szyb Babina" lignite mine in western Poland (Lubuskie). The dataset presents the underwater digital terrain model acquired by the USV (unmanned survey vessel) bathymetric survey. The file should be used for educational, promotional, and research purposes with the citation provided.
DOI: 10.15468/dl.p7xs7t
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Egypt",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041487-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2my3na
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Georgia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041489-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bs985k
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Persicaria lapathifolia",
 "Country is Eswatini",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041488-250811113504898/datasets/export for details.
DOI: 10.15468/dl.vq6fru
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Typhlobelus auriculatus)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 5 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041490-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.