cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.h2aksz
title: Occurrence Download

description: A dataset containing 1232 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gymnura australis",
 "HasCoordinate is true",
 {
 "or" : [
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Living Specimen",
 "BasisOfRecord is Machine Observation",
 "BasisOfRecord is Material citation",
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Observation",
 "BasisOfRecord is Occurrence evidence",
 "BasisOfRecord is Specimen"
 ]
 },
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 1232 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004305-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3886/e223244
title: Apps for Ag Hackathon | Department of Veterans Affairs Open Data Portal

description: This project includes a pdf capture of a webpage and the underlying data for the visualizations in both csv and Tableau formats.<br>On July 28-30, 2017, the VA Office of Enterprise Integration and the University of California Agriculture and Natural Resources (UCANR) convened a 48-hour collaborative event at the Urban Hive in Sacramento, California, to encourage the development of innovative solutions to spark entrepreneurship and bring together the seemingly disparate worlds of software development, commercial farming, and Veterans.<br><br>Data about Veteran farmers by county was also used at Tableau’s Student Data Hackathon on July 31, 2018, where Washington D.C. area college students, who are Veterans, learned about Tableau products using data from VA’s Open Data and the Bureau of Labor Statistics to build data analytics skills creating data visualizations.
DOI: 10.3886/e223244v1
title: Apps for Ag Hackathon | Department of Veterans Affairs Open Data Portal

description: This project includes a pdf capture of a webpage and the underlying data for the visualizations in both csv and Tableau formats.<br>On July 28-30, 2017, the VA Office of Enterprise Integration and the University of California Agriculture and Natural Resources (UCANR) convened a 48-hour collaborative event at the Urban Hive in Sacramento, California, to encourage the development of innovative solutions to spark entrepreneurship and bring together the seemingly disparate worlds of software development, commercial farming, and Veterans.<br><br>Data about Veteran farmers by county was also used at Tableau’s Student Data Hackathon on July 31, 2018, where Washington D.C. area college students, who are Veterans, learned about Tableau products using data from VA’s Open Data and the Bureau of Labor Statistics to build data analytics skills creating data visualizations.
DOI: 10.15468/dl.s68kcp
title: Occurrence Download

description: A dataset containing 18082 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Sweden, Norway, Finland)",
 "TaxonKey is Alces alces (Linnaeus, 1758)",
 "Year 2020-2024"
 ]
}

 The dataset includes 18082 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013358-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.335yqu
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Chloroleucon sempervivum Silverst."
 ]
}

 The dataset's 1 records were derived from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013355-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bfzrfq
title: Occurrence Download

description: A dataset containing 3161 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Investigación y monitoreo de avifauna con estaciones de anillamiento permanentes en el Chocó Andino"
 ]
}

 The dataset includes 3161 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013359-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4cvj4n
title: Occurrence Download

description: A dataset containing 23 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Guatemala",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Asplundia Harling"
 ]
}

 The dataset includes 23 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013360-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8h2at5
title: Occurrence Download

description: A dataset containing 6779 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Costa Rica",
 "TaxonKey is Jabiru mycteria (Lichtenstein, 1819)"
 ]
}

 The dataset includes 6779 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013361-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gz9qvd
title: Occurrence Download

description: A dataset containing 1029 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "Country is one of (United States of America, United States Minor Outlying Islands, American Samoa, Micronesia (Federated States of), Guam, Marshall Islands, Northern Mariana Islands, Puerto Rico, Palau, Virgin Islands (U.S.))",
 {
 "not" : {
 "Issue" : [
 "is Country coordinate mismatch"
 ]
 }
 }
 ]
 },
 {
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Material sample, Material citation, Specimen, Living Specimen, Occurrence evidence)",
 "Year 1975-2025",
 "OccurrenceStatus is one of (Present)",
 "TaxonKey is one of (Epioblasma triquetra (Rafinesque, 1820))"
 ]
 }
 ]
}

 The dataset includes 1029 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013362-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27038293.v1
title: smartadult_data.xlsx

description: Exploring ethical surveillance of physical activity behaviors: a smart platform study operationalizing digital citizen science
DOI: 10.15468/dl.w95gsz
title: Occurrence Download

description: A dataset containing 128 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Delphastus pusillus (LeConte, 1852)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 128 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013365-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.36txez
title: Occurrence Download

description: A dataset containing 149 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bombus natvigi Richards, 1931"
 ]
}

 The dataset includes 149 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013366-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60656/bab34b5ad50e4a93
title: Custom collection of radar data from Granada on 8 Nov 2024
DOI: 10.18150/27no6a
title: Polska adaptacja Trigger Warning Attitudes Scale: analiza korelacji ze wskaźnikami związanymi z traumą

description: PLDane zebrane w celu adaptacji Trigger Warning Attitudes Scale na język polski.Zbiór zawiera dwa pliki:1) TWASAdaptation_database.csv - zawierający dane, nazwy zmiennych w 1 wierszu, separator średnik,2) TWASAdaptation_variables.txt - zawierający skrócony opis zmiennych z pliku .csv.
DOI: 10.15468/dl.n37bf9
title: Occurrence Download

description: A dataset containing 288 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nothoscordum montevidense Beauverd"
 ]
}

 The dataset includes 288 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013367-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28611479
title: Source Files: Crab-eating Macaque TLR4

description: Source PDB file for <i>Macaca fascicularis</i> (Crab-eating macaque) TLR4. Sourced from Uniprot and Alphafold.
DOI: 10.6084/m9.figshare.28611479.v1
title: Source Files: Crab-eating Macaque TLR4

description: Source PDB file for <i>Macaca fascicularis</i> (Crab-eating macaque) TLR4. Sourced from Uniprot and Alphafold.
DOI: 10.6084/m9.figshare.28611470
title: Source Files: Rhesus macaque TLR4

description: Source PDB file for <i>Macaca mulatta</i> (Rhesus macaque) TLR4. Sourced from Uniprot and Alphafold.
DOI: 10.6084/m9.figshare.28611470.v1
title: Source Files: Rhesus macaque TLR4

description: Source PDB file for <i>Macaca mulatta</i> (Rhesus macaque) TLR4. Sourced from Uniprot and Alphafold.
DOI: 10.6084/m9.figshare.28611512
title: Source Files: Common Marmoset TLR4

description: Source PDB file for <i>Callithrix jacchus </i>(Common Marmoset) TLR4. Sourced from Uniprot and Alphafold.<br>
DOI: 10.6084/m9.figshare.28611512.v1
title: Source Files: Common Marmoset

description: Source PDB file for <i>Callithrix jacchus </i>(Common Marmoset) TLR4. Sourced from Uniprot and Alphafold.<br>
DOI: 10.6084/m9.figshare.28611512.v2
title: Source Files: Common Marmoset TLR4

description: Source PDB file for <i>Callithrix jacchus </i>(Common Marmoset) TLR4. Sourced from Uniprot and Alphafold.<br>
DOI: 10.6084/m9.figshare.28611578
title: Source Files: Ugandan Red Colobus TLR4

description: Source PDB file for <i>Piliocolobus tephrosceles</i> (Ugandan red Colobus) TLR4. Sourced from Uniprot and Swiss model protein server.
DOI: 10.6084/m9.figshare.28611578.v1
title: Source Files: Ugandan Red Colobus

description: Source PDB file for <i>Piliocolobus tephrosceles</i> (Ugandan red Colobus) TLR4. Sourced from Uniprot and Swiss model protein server.
DOI: 10.6084/m9.figshare.28611578.v2
title: Source Files: Ugandan Red Colobus TLR4

description: Source PDB file for <i>Piliocolobus tephrosceles</i> (Ugandan red Colobus) TLR4. Sourced from Uniprot and Swiss model protein server.
DOI: 10.6084/m9.figshare.28611410
title: Source Files: Northern White-Cheeked Gibbon TLR4

description: Source PDB file for <i>Hylobates Leucogenys (</i>Northern White-Cheeked Gibbon) TLR4. Sourced from Uniprot and Alphafold. Was not able to find any other <i>Hylobates </i>PDB files so this structure was used to represent both the gibbons.
DOI: 10.6084/m9.figshare.28611410.v2
title: Source Files: Northern White-Cheeked Gibbon TLR4

description: Source PDB file for <i>Hylobates Leucogenys (</i>Northern White-Cheeked Gibbon) TLR4. Sourced from Uniprot and Alphafold. Was not able to find any other <i>Hylobates </i>PDB files so this structure was used to represent both the gibbons.
DOI: 10.6084/m9.figshare.28611410.v1
title: Source Files: Northern White-Cheeked Gibbon

description: Source PDB file for <i>Hylobates Leucogenys (</i>Northern White-Cheeked Gibbon). Sourced from Uniprot and Alphafold. Was not able to find any other <i>Hylobates </i>PDB files so this structure was used to represent both the gibbons.
DOI: 10.15468/dl.nmuvrp
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bauhinia geniculata Wunderlin"
 ]
}

 The dataset's 1 records were derived from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013363-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z5d6bg
title: Occurrence Download

description: A dataset containing 2165 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Diatraea Guilding, 1828"
 ]
}

 The dataset includes 2165 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013369-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9bs5et
title: Occurrence Download

description: A dataset containing 652 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "Country is one of (United States of America, United States Minor Outlying Islands, American Samoa, Micronesia (Federated States of), Guam, Marshall Islands, Northern Mariana Islands, Puerto Rico, Palau, Virgin Islands (U.S.))",
 {
 "not" : {
 "Issue" : [
 "is Country coordinate mismatch"
 ]
 }
 }
 ]
 },
 {
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Material sample, Material citation, Specimen, Living Specimen, Occurrence evidence)",
 "Year 1975-2025",
 "OccurrenceStatus is one of (Present)",
 "TaxonKey is one of (Obovaria subrotunda Rafinesque, 1820)"
 ]
 }
 ]
}

 The dataset includes 652 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013371-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cwz7vv
title: Occurrence Download

description: A dataset containing 270 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nothoscordum bonariense (Pers.) Beauverd"
 ]
}

 The dataset includes 270 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013370-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.utyy93
title: Occurrence Download

description: A dataset containing 117 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Rhipidomys latimanus (Tomes, 1860)"
 ]
}

 The dataset includes 117 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013373-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27038293
title: Exploring ethical surveillance of physical activity behaviors: a smart platform study operationalizing digital citizen science

description: This data supports the study exploring ethical surveillance of physical activity behaviors: a smart platform study operationalizing digital citizen science.
DOI: 10.15468/dl.6ztqs8
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Parlatoria proteus (Curtis, 1843)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 22 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013375-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.efzph4
title: Occurrence Download

description: A dataset containing 35692 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is COL.2_2",
 "OccurrenceStatus is Present",
 "TaxonKey is Mammalia"
 ]
}

 The dataset includes 35692 records from 107 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013374-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.26053936.v4
title: Supplementary data for the manuscript titled "Integrative genomic reconstruction of carbohydrate utilization networks in bifidobacteria reveals global trends, local variability, and dietary adaptation"

description: This repository contains the following files:bif_263_fna.zip - FASTA file with genomic sequences of 263 reference <i>Bifidobacterium</i> genomesbif_263_subsystem_proteins.zip - FASTA file with 39589 protein sequences of 589 curated functional roles predicted in 263 reference <i>Bifidobacterium</i> genomesselected_gbk_files.zip - GenBank files of six reference <i>Bifidobacterium</i> genomes. These files have the specific locus tags that were reported in several supplementary tables (RNA-seq data of <i>Bifidobacterium catenulatum</i> subsp. <i>kashiwanohense </i>Bg42221_1E1 and regulon reconstructions)<br>
DOI: 10.5281/zenodo.15032176
title: Data and plotting scripts for Boer et al. (2025)

description: This repository provides the data, scripts to generate and plot this data for Boer et al. (2025). For questions, help and notifications surrounding this repository please contact Iris Boer.

Framework

This study makes use of the PROTEUS framework, derived from Lichtenberg et al. (2021) and expanded by Nicholls et al. (2024); Nicholls et al. (2024). The following modules are incorporated:



CALLIOPE: Models outgassing processes to calculate surface volatile partial pressures following methodologies from Bower et al. (2022) and Shorttle et al. (2024).

JANUS: A predefined atmosphere model of convective planetary atmospheres (Graham et al. 2021, 2022) that computes atmospheric temperature and radiative fluxes based on surface volatile partial pressures.


Data Contents



Jupyter Notebook Boer+25_notebook.ipynb: Generates the figures presented in the paper.

Data files (.csv, .txt): Contain raw tabular data and comparison data used in the analysis.

Figures (.pdf): Figures presented in the paper.

Python script (Boer+25_script.py): Perform calculations using the above mentioned components of the PROTEUS framework, which couples atmospheric and interior models for rocky planet evolution. This script is used to obtain the raw data that is used for the analysis. 

Python script (Data_extraction.py): Extracts relevant data from raw tabular data files for analysis.

README file (README.md): Provides dataset details and usage instructions


This raw data files contain (calculated) atmospheric properties including: Outgoing long-wave radiation (OLR), atmospheric composition (vol_partial), T-P profile (atm_moist_tmpl , atm_moist_pl) based on the initial input parameters: surface temperature (T_surf), Outgassing temperature (T_outgas), Hydrogen abundance (Hydrogen), C/H ratio (CH_ratio), redox state (fO2_shift), Nitrogen abundance (Nitrogen), Manlte mass (mantle_mass), Mantle melt fraction (mantle_melt_fraction) which are also stored in the data files.

More details on the repository structure and module usage can be found in the README file.
DOI: 10.15468/dl.rpryrk
title: Occurrence Download

description: A dataset containing 15352344 species occurrences available in GBIF matching the query:
{
 "Country" : [
 "is Argentina"
 ]
}

 The dataset includes 15352344 records from 2276 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013356-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111295301
title: Tel Zayit Stone, Tel Zayit Abecedary

description: [Text Description:] A stone with a two-line inscription, an abecedary ❧ [Excavation Description:] At the end of the 2005 excavation season at Tel Zayit, Israel, The Zeitah Excavations recovered a large stone bearing an incised, two-line inscription, (Locus 2307/2389) ❧ [Medium:] Stone ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Limestone boulder (17.33 kg), 37.5 cm x 27 cm; 15.7 cm height. ❧ [Physical Object Note:] Two lines of letters on one side (plus one additional word), and a large, bowl-shaped hollow (18.5 cm x 14.5 cm; 6.7 cm deep) ground into the other side. ❧ [Physical Object Note:] Used in the construction of a wall dating to the 10th c. BCE, that suffered heavy destruction by fire. ❧
DOI: 10.15468/dl.m4eyu5
title: Occurrence Download

description: A dataset containing 15092291 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Australia",
 "PublishingOrg is 75ed4c27-9997-41c4-81a4-675b4282ffad"
 ]
}

 The dataset includes 15092291 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0029696-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111295305
title: Tel Zayit Stone, Tel Zayit Abecedary

description: [Text Description:] A stone with a two-line inscription, an abecedary ❧ [Excavation Description:] At the end of the 2005 excavation season at Tel Zayit, Israel, The Zeitah Excavations recovered a large stone bearing an incised, two-line inscription, (Locus 2307/2389) ❧ [Medium:] Stone ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Limestone boulder (17.33 kg), 37.5 cm x 27 cm; 15.7 cm height. ❧ [Physical Object Note:] Two lines of letters on one side (plus one additional word), and a large, bowl-shaped hollow (18.5 cm x 14.5 cm; 6.7 cm deep) ground into the other side. ❧ [Physical Object Note:] Used in the construction of a wall dating to the 10th c. BCE, that suffered heavy destruction by fire. ❧
DOI: 10.15468/dl.2hxyru
title: Occurrence Download

description: A dataset containing 592 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Opuntia microdasys (Lehm.) Pfeiff."
 ]
}

 The dataset includes 592 records from 54 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003680-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111295462
title: Tel Zayit Stone, Tel Zayit Abecedary

description: [Text Description:] A stone with a two-line inscription, an abecedary ❧ [Excavation Description:] At the end of the 2005 excavation season at Tel Zayit, Israel, The Zeitah Excavations recovered a large stone bearing an incised, two-line inscription, (Locus 2307/2389) ❧ [Medium:] Stone ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Limestone boulder (17.33 kg), 37.5 cm x 27 cm; 15.7 cm height. ❧ [Physical Object Note:] Two lines of letters on one side (plus one additional word), and a large, bowl-shaped hollow (18.5 cm x 14.5 cm; 6.7 cm deep) ground into the other side. ❧ [Physical Object Note:] Used in the construction of a wall dating to the 10th c. BCE, that suffered heavy destruction by fire. ❧
DOI: 10.25549/inscriptifact-ouc111126062
title: Temple messenger tablet, UT 1599-29

description: [Text Description:] Temple messenger tablet with a list of provisions. Fine writing. ❧ [Text or Publication Number Note:] UT 1599-29 ❧ [Excavation Description:] Tello ❧ [Medium:] Clay ❧ [Script Note:] Cuneiform, Non-Alphabetic ❧ [Physical Object Description:] Clay tablet, pink-brown color. Fragile. Glue traces on obverse. LABEL: "1599-29" in black ink, "3P" in black marker. 3.5 x 2.5cm.