cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.17639715
title: Dataset for "Characterizing and Mitigating Flux Crosstalk in Superconducting Qubits-Couplers System"

description: modified graphical abstract

added contributors in JSON and README files, along with their corresponding funding sources.

corrected concept DOI and version in README.md and zenodo.json
description: If you use this Zenodo template or its structure, please cite as below.

“Data structure and metadata template adapted from Aguila et al. (2025, Zenodo DOI: 10.5281/zenodo.17639715).”
DOI: 10.5281/zenodo.14549513
title: Decoding human placental cellular and molecular responses to maternal obesity and fetal growth

description: The source data for the main figures for the manuscript "Decoding human placental cellular and molecular responses to maternal obesity and fetal growth by single-nuclei RNA-seq"
DOI: 10.5281/zenodo.15053792
title: Decoding human placental cellular and molecular responses to maternal obesity and fetal growth

description: The source data for the main figures for the manuscript "Decoding human placental cellular and molecular responses to maternal obesity and fetal growth by single-nuclei RNA-seq"
DOI: 10.15468/dl.p2f9xe
title: Occurrence Download

description: A dataset containing 700691 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Canada, United States of America, Mexico)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Danaus plexippus",
 "Year 1990-2025"
 ]
}

 The dataset includes 700691 records from 96 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055881-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17026/ar/muv7wt
title: PAN-00170713 - lead ingot

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00170713&lt;/p&gt;
description: Modified: 2025-06-08T10:40:25+02:00
DOI: 10.6084/m9.figshare.23544774
title: sortChIC testdata package

description: <br>Test data from the protocol single-cell sortChIC, presented in Zeller, Yueng et. al., Nat. Gen . This dataset includes BAM files that represent MNase cuts targetted at **H3K27me3** histone mark in single-cells from adult mouse bone marrow, sorted into 384 well plates, along with associated metadata.<br>List of contents:- <b>4x BAM files</b> (indexed), that contain data from 4x 384-well plates, reads are subsetted for **chromosome 1** (mm10/GRCm38)- <b>mm10_chr1.2bit:</b> 2-bit file storing the sequence information for mouse chromosome 1- <b>mm10_blacklist.bed:</b> blacklisted regions to avoid- <b>sortChIC_barcodes.txt:</b> barcodes corresponding to the 384-well plate- <b>metadata.txt:</b> metadata file that defines cell types from FACS label<br>Links for reference:- https://www.nature.com/articles/s41588-022-01260-3- https://github.com/vivekbhr/sincei
DOI: 10.6084/m9.figshare.23544774.v2
title: sortChIC testdata package

description: <br>Test data from the protocol single-cell sortChIC, presented in Zeller, Yueng et. al., Nat. Gen . This dataset includes BAM files that represent MNase cuts targetted at **H3K27me3** histone mark in single-cells from adult mouse bone marrow, sorted into 384 well plates, along with associated metadata.<br>List of contents:- <b>4x BAM files</b> (indexed), that contain data from 4x 384-well plates, reads are subsetted for **chromosome 1** (mm10/GRCm38)- <b>mm10_chr1.2bit:</b> 2-bit file storing the sequence information for mouse chromosome 1- <b>mm10_blacklist.bed:</b> blacklisted regions to avoid- <b>sortChIC_barcodes.txt:</b> barcodes corresponding to the 384-well plate- <b>metadata.txt:</b> metadata file that defines cell types from FACS label<br>Links for reference:- https://www.nature.com/articles/s41588-022-01260-3- https://github.com/vivekbhr/sincei
DOI: 10.6084/m9.figshare.23544774.v1
title: sortChIC testdata package

description: <br>
Test data from the protocol single-cell sortChIC, presented in Zeller, Yueng et. al., Nat. Gen . This dataset includes BAM files that represent MNase cuts targetted at **H3K27me1** histone mark in single-cells from adult mouse bone marrow, sorted into 384 well plates, along with associated metadata. 
<br>
List of contents:
 - <strong>4x BAM files</strong> (indexed), that contain data from 4x 384-well plates, reads are subsetted for **chromosome 1** (mm10/GRCm38)
 - <strong>mm10_chr1.2bit:</strong> 2-bit file storing the sequence information for mouse chromosome 1
 - <strong>mm10_blacklist.bed:</strong> blacklisted regions to avoid
 - <strong>sortChIC_barcodes.txt:</strong> barcodes corresponding to the 384-well plate
 - <strong>metadata.txt:</strong> metadata file that defines cell types from FACS label
<br>
Links for reference: 
 - https://www.nature.com/articles/s41588-022-01260-3
 - https://github.com/vivekbhr/sincei
DOI: 10.5281/zenodo.14879025
title: NER on bioinformatics workflows

description:  

Data presentation 





This dataset contains articles from two corpus :

 





SoftCite, James Howison, Patrice Lopez, Caifan Du, & Hannah Cohoon. (2023). Softcite Dataset Version 2 (2.0) [Data set]. Zenodo. https://doi.org/10.5281/zenodo.7995565

BioToFlow, Sebe, C., Cohen-Boulakia, S., Ferret, O., & Névéol, A. (2025). BioToFlow: a corpus annotated with bioinformatics workflows information [Data set]. Zenodo. https://doi.org/10.5281/zenodo.14900544




Folder Structure


Each subfolder includes the training and development datasets for each segmentation approach, along with the test sets.



BioToFlow_split






SoftCite_split







Fusion_BioToFlow_SoftCite




Instructions


The experiments associated with these datasets are documented in the Git repository: https://gitlab.liris.cnrs.fr/sharefair/ner_workflows
DOI: 10.15468/dl.drf358
title: Occurrence Download

description: A dataset containing 88812 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tracheophyta",
 "DecimalLatitude is greater than or equal to 60.0",
 "DecimalLatitude is less than or equal to 65.0",
 "DecimalLongitude is greater than or equal to -150.0",
 "DecimalLongitude is less than or equal to -145.0",
 "HasCoordinate is TRUE",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 88812 records from 189 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055884-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14879024
title: NER on bioinformatics workflows

description:  

Data presentation 





This dataset contains articles from two corpus :

 





SoftCite, James Howison, Patrice Lopez, Caifan Du, & Hannah Cohoon. (2023). Softcite Dataset Version 2 (2.0) [Data set]. Zenodo. https://doi.org/10.5281/zenodo.7995565

BioToFlow, Sebe, C., Cohen-Boulakia, S., Ferret, O., & Névéol, A. (2025). BioToFlow: a corpus annotated with bioinformatics workflows information [Data set]. Zenodo. https://doi.org/10.5281/zenodo.14900544




Folder Structure


Each subfolder includes the training and development datasets for each segmentation approach, along with the test sets.



BioToFlow_split






SoftCite_split







Fusion_BioToFlow_SoftCite




Instructions


The experiments associated with these datasets are documented in the Git repository: https://gitlab.liris.cnrs.fr/sharefair/ner_workflows
DOI: 10.6084/m9.figshare.29424470
title: 10x multiome test data package

description: This is a small subset of the dataset from Persad et. al , provided to accompany the sincei 10x-multiome analysis tutorial. It contains 4 indexed BAM files:cellranger_output_rep1_atac_possorted_bam.bamcellranger_output_rep1_gex_possorted_bam.bamcellranger_output_rep2_atac_possorted_bam.bamcellranger_output_rep2_gex_possorted_bam.bamThe ATAC-seq peak files from cellranger-arc workflow (merged for 2 replicates): atacPeaks_replicateMerged.bedThe whitelist of barcodes (subsettted for the barcodes used in this tutorial): 10x_barcodes_tutorial.txtalong with 2 metadata .csv files, which contain cell type annotations:metadata_cd34_atac.csvmetadata_cd34_rna.csv<br>
DOI: 10.6084/m9.figshare.29424470.v4
title: 10x multiome test data package

description: This is a small subset of the dataset from Persad et. al , provided to accompany the sincei 10x-multiome analysis tutorial. It contains 4 indexed BAM files:cellranger_output_rep1_atac_possorted_bam.bamcellranger_output_rep1_gex_possorted_bam.bamcellranger_output_rep2_atac_possorted_bam.bamcellranger_output_rep2_gex_possorted_bam.bamThe ATAC-seq peak files from cellranger-arc workflow (merged for 2 replicates): atacPeaks_replicateMerged.bedThe whitelist of barcodes (subsettted for the barcodes used in this tutorial): 10x_barcodes_tutorial.txtalong with 2 metadata .csv files, which contain cell type annotations:metadata_cd34_atac.csvmetadata_cd34_rna.csv<br>
DOI: 10.6084/m9.figshare.29424470.v3
title: 10x multiome test data package

description: This is a small subset of the dataset from Persad et. al , provided to accompany the sincei 10x-multiome analysis tutorial. It contains 4 indexed BAM files:cellranger_output_rep1_atac_possorted_bam.bamcellranger_output_rep1_gex_possorted_bam.bamcellranger_output_rep2_atac_possorted_bam.bamcellranger_output_rep2_gex_possorted_bam.bamThe ATAC-seq peak files from cellranger-arc workflow (merged for 2 replicates):atacPeaks_replicateMerged.bedalong with 2 metadata .csv files, which contain cell type annotations:metadata_cd34_atac.csvmetadata_cd34_rna.csv<br>
DOI: 10.34740/kaggle/dsv/14192697
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5880/g3p.2025.001
title: Global Multi-Resolution Land Fraction and Land–Ocean Masks Derived from ESA CCI Water Bodies v4.0

description: The dataset provides a set of 8 land ocean masks as NetCDF files based on the maps provided by the datasets ESA CCI Water Bodies - v4.0, Ocean-Map-150m-P13Y-2000-v4.0. The masks come as regular lon/lat grids in 0.1°, 0.25°, 0.5° and 1° spatial resolution, each as a version with and without Greenland and the antarctic regions (anything south of 60° S). 
 
The data fields of the individual datasets comprise of 
a) a field with information on the fraction of land in a grid cell, defined by the number of 150m cells of the source dataset lying within a target grid cell, 
b) a field with a flag (1 or 0) if a a grid cell contains more than 50% land area or not, and 
c) a field with a flag (1 or 0) if a grid cell contains any land at all. 
 
The dataset was generated in the course of the project "Global Gravity-based Groundwater Product (G3P)" to facilitate data production on a regular grid and to mask out oceans. G3P was funded by the EU Horizon 2020 programme in response to the call LC-SPACE-04-EO-2019-2020 “Copernicus evolution – Research activities in support of cross-cutting applications between Copernicus services” under grant agreement No. 870353.
DOI: 10.15468/dl.n86ygx
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Living Specimen, Occurrence evidence)",
 "Country is Portugal",
 "OccurrenceStatus is Present",
 "TaxonKey is Lepus europaeus",
 "Year 1975-2025"
 ]
}

 The dataset includes 10 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055917-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17962132
title: Cultural consumptions of KLC
DOI: 10.5281/zenodo.17962133
title: Cultural consumptions of KLC
DOI: 10.17026/ar/wesn6l
title: PAN-00174427 - strap mount Early Modern horse gear group A

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00174427&lt;/p&gt;
description: Modified: 2025-05-15T14:43:26+02:00
DOI: 10.60532/scp.2021_22.w1.v1
title: German Social Cohesion Panel 2021/22 – Wave 1
title: Dataset and Documentation

description: The Research Institute Social Cohesion (RISC) and the Socio-Economic Panel (SOEP) at the German Institute for Economic Research (DIW Berlin) are conducting a panel study as part of their research cooperation. This involves surveying individuals in Germany in their household context on aspects of social cohesion, social inequality and social conflict. The dataset "German Social Cohesion Panel 2021/22 – Wave 1" includes survey data and generated indicators of the first and second part of the first panel wave. It contains responses from household anchor persons drawn from population registers and from adult household members who were named by the anchor persons and subsequently interviewed.
description: Self-administered questionnaire: Paper
description: Self-administered questionnaire: Web-based
description: Individuals in private households in Germany
description: The anchor persons were drawn from population registers using a two-stage sampling procedure. Eastern Germans were disproportionately drawn into the sample. All adult household members named by the anchor persons were subsequently invited to participate in the survey.
DOI: 10.17026/ar/lwubg4
title: PAN-00113645 - medieval badge: brooch

description: &lt;p&gt;This find is registered at Portable Antiquities of the Netherlands with number PAN-00113645&lt;/p&gt;
description: Modified: 2025-09-05T15:12:18+02:00
DOI: 10.15468/dl.px3kyt
title: Occurrence Download

description: A dataset containing 21868501 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United Kingdom of Great Britain and Northern Ireland",
 {
 "or" : [
 {
 "not" : {
 "GadmGid" : [
 "is GBR"
 ]
 }
 },
 "GadmGid is null"
 ]
 }
 ]
}

 The dataset includes 21868501 records from 3035 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055876-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.87hxen
title: Occurrence Download

description: A dataset containing 389 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Land and freshwater molluscs of Gran Canaria (Spain)"
 ]
}

 The dataset includes 389 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011742-230918134249559/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.btkdgy
title: Occurrence Download

description: A dataset containing 20 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dendropsophus tritaeniatus (Bokermann, 1965)"
 ]
}

 The dataset includes 20 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009535-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zxhw3a
title: Occurrence Download

description: A dataset containing 8106 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "TaxonKey is Genetta genetta (Linnaeus, 1758)"
 ]
}

 The dataset includes 8106 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0166385-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dwhv6w
title: Occurrence Download

description: A dataset containing 7372 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (North America, South America)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Xyleborus W.J.Eichhoff, 1864",
 "Year 1901-2023"
 ]
}

 The dataset includes 7372 records from 54 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010311-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xxmsvv
title: Occurrence Download

description: A dataset containing 21962 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Celastrus orbiculatus Thunb."
 ]
}

 The dataset includes 21962 records from 249 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0200092-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.agdz5k
title: Occurrence Download

description: A dataset containing 106 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Pseudalutarius nasicornis (Temminck & Schlegel, 1850)"
 ]
}

 The dataset includes 106 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0113039-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.896w5d
title: Occurrence Download

description: A dataset containing 62950 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is one of (Europe, Oceania, Asia, Antarctica, Africa)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Xyleborus W.J.Eichhoff, 1864",
 "Year 1901-2023"
 ]
}

 The dataset includes 62950 records from 329 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010326-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11053822
title: Dataset, Model Statistics, and 3D designs for "From Eyes to Cameras: Computer Vision for High-Throughput Liquid-Liquid Separation"

description: Dataset, model statistics, and 3D design of high throughput platform associated with HeinSight3.0. 

 

Pre-print: https://chemrxiv.org/engage/chemrxiv/article-details/65e5481f9138d231619c1879

 

The code and model of HeinSight3.0 can be found at (https://doi.org/10.5281/zenodo.11053915)
DOI: 10.5281/zenodo.11053823
title: Dataset, Model Statistics, and 3D designs for "From Eyes to Cameras: Computer Vision for High-Throughput Liquid-Liquid Separation"

description: Dataset, model statistics, and 3D design of high throughput platform associated with HeinSight3.0. 

 

Pre-print: https://chemrxiv.org/engage/chemrxiv/article-details/65e5481f9138d231619c1879

 

The code and model of HeinSight3.0 can be found at (https://doi.org/10.5281/zenodo.11053915)
DOI: 10.15468/dl.ddf4nd
title: Occurrence Download

description: A dataset containing 289 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "TaxonKey is Equus zebra Linnaeus, 1758"
 ]
}

 The dataset includes 289 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0113046-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kfsgsd
title: Occurrence Download

description: A dataset containing 535 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Drosera gigantea Lindl."
 ]
}

 The dataset includes 535 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009535-190320150433242/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wev4xn
title: Occurrence Download

description: A dataset containing 823 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "TaxonKey is Swietenia macrophylla G.King"
 ]
}

 The dataset includes 823 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010325-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pjrutt
title: Occurrence Download

description: A dataset containing 1012 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Panthera tigris (Linnaeus, 1758))",
 "HasCoordinate is one of (true)",
 "OccurrenceStatus is one of (Present)"
 ]
}

 The dataset includes 1012 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0113062-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sxkfp7
title: Occurrence Download

description: A dataset containing 5817 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Solanum pimpinellifolium Mill. ex Dunal"
 ]
}

 The dataset includes 5817 records from 66 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0162490-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5tdcu2
title: Occurrence Download

description: A dataset containing 917867 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Squalius cephalus (Linnaeus, 1758)"
 ]
}

 The dataset includes 917867 records from 394 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011059-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pkmx4e
title: Occurrence Download

description: A dataset containing 170 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Antechinus adustus (Thomas, 1923)"
 ]
}

 The dataset includes 170 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0352737-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z5rptj
title: Occurrence Download

description: A dataset containing 3992 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Macroptilium lathyroides (L.) Urb.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3992 records from 203 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015744-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xbcgab
title: Occurrence Download

description: A dataset containing 14646 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rhus glabra L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 14646 records from 180 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0011399-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.