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

description: A dataset listing the 317 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Italy",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Reptilia"
 ]
}

 The dataset's 317 records were derived from 43 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0209945-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.stbkz6
title: Occurrence Download

description: A dataset containing 5946 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "TaxonKey is Vicia peregrina L."
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 5946 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021277-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q3wgwe
title: Occurrence Download

description: A dataset containing 174828 species occurrences available in GBIF matching the query:
{
 "and" : [
 "InstitutionCode is inaturalist",
 "MediaType is Image",
 "TaxonKey is Lycaenidae"
 ]
}

 The dataset includes 174828 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0152654-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.olvuwo
title: Occurrence Download

description: A dataset listing the 38 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cyttarops Thomas, 1913"
 ]
}

 The dataset's 38 records were derived from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021277-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6cuh8k
title: Occurrence Download

description: A dataset containing 2872 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ficus microcarpa L.fil.",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2872 records from 121 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0208211-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.llwvr3
title: Occurrence Download

description: A dataset containing 61 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "Geometry POLYGON((-73.17993 7.10089,-74.32251 7.1881,-74.23462 4.91583,-69.46655 4.76257,-69.11499 7.2317,-73.17993 7.10089))",
 "HasCoordinate is true",
 "TaxonKey is Alouatta seniculus (Linnaeus, 1766)",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 61 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021278-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25919/ke22-mx65
title: Parkes observations for project P116 semester 2024APRS_01

description: Radio pulsars in orbit around high-mass main-sequence stellar companions offer a rich source of extreme physics for both observational astronomers and theorists alike. First discovered over 30 years ago, PSR B1259-63/LS 2883 remains the best system that to answer fundamental questions such as: What is the structure and origin of the stellar winds of high-mass stars? Are binary companions the source of extreme spectropolarimetric variations in repeating FRB sources? In this proposal, we will conduct an unprecedented daily-cadence observing campaign on PSR B1259-63 with the Ultra-Wideband Low receiver system throughout the upcoming 2024 periastron passage. This will allow us to precisely map the charged particle density and magnetic field of the stellar wind from LS 2883 before and after the pulsar plunges through its circumstellar disc, and thereby answer the above questions.
DOI: 10.15468/dl.efk6gf
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rubus centralis L.H.Bailey",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Continent is North America"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0167350-200613084148143/datasets/export for details.
DOI: 10.15468/dl.jufgv6
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Diploneis zanzibarica (Grunow) Hustedt, 1937"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021279-180131172636756/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.djayk9
title: Occurrence Download

description: A dataset containing 187 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hydrophis viperinus (Schmidt, 1852)"
 ]
}

 The dataset includes 187 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0209948-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ligazl
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Côte d’Ivoire",
 "TaxonKey is Tephrosia mossiensis A.Chev."
 ]
}

 The dataset includes 9 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021279-181108115102211/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.prrx65
title: Occurrence Download

description: A dataset containing 14322 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is SOMBASE – Southern Ocean mollusc database: a tool for biogeographic analysis in diversity and evolution"
 ]
}

 The dataset includes 14322 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0203337-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tld9zs
title: Occurrence Download

description: A dataset containing 191527 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "TaxonKey is Vicia sepium L."
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 191527 records from 520 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021280-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bamwxs
title: Occurrence Download

description: A dataset containing 246 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anolis pentaprion Cope, 1863"
 ]
}

 The dataset includes 246 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002840-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h4xscj
title: Occurrence Download

description: A dataset containing 1220 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Sweden",
 "HasCoordinate is true",
 "TaxonKey is Tricholoma matsutake (S.Ito & S.Imai) Singer",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1220 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021282-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rawh8e
title: Occurrence Download

description: A dataset containing 11634 species occurrences available in GBIF matching the query:
{
 "or" : [
 "TaxonKey is Vampyrum spectrum (Linnaeus, 1758)",
 "TaxonKey is Choeronycteris mexicana Tschudi, 1844",
 "TaxonKey is Balantiopteryx io Thomas, 1904",
 "TaxonKey is Perimyotis subflavus (F.Cuvier, 1832)"
 ]
}

 The dataset includes 11634 records from 145 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005369-210819072339941/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25345/c5mw28t4t
title: MassIVE MSV000099668 - A New microbe-derived NAD precursor drives Sirtuin-mediated stem cell renewal and tissue repair - 20220131
title: To examine whether antibiotic-induced dysbiosis alters fecal levels of N-MNA and N1-MNA in specific-pathogen-free (SPF) mice, we conducted a microbiome-depletion experiment using specific-pathogen-free (SPF) mice. Mice were treated with a broad-spectrum antibiotic cocktail (ABX) for 7 days, followed by 3 days of recovery on sterile Milli-Q water. Fecal samples were collected from the same individuals before and after antibiotic treatment, enabling paired comparison of metabolite levels. Fecal metabolites were extracted using methanol precipitation and analyzed by targeted LC-MS on a ThermoFisher Q Exactive Plus in positive ion mode. The relative abundances of N-MNA and N1-MNA were quantified and normalized across pre- and post-treatment samples (n = 5 biological replicates). This experiment revealed a significant reduction in both methylated nicotinamide derivatives following microbiome depletion, supporting their microbial origin in vivo.
DOI: 10.5281/zenodo.17467890
title: Dataset of Textual Analysis Results Using BERT for Cultural Heritage Damage in Mosul

description: This dataset contains results from textual analysis using the BERT model applied to cultural heritage materials related to Mosul and Nineveh. The data were collected from social media platforms, news websites, specialized heritage websites, and UNESCO resources. The dataset includes extracted entities (heritage sites, responsible parties), sentiment labels (before and after destruction), reconstruction status, and temporal information.
DOI: 10.15468/dl.5nhywe
title: Occurrence Download

description: A dataset containing 485 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Melliniella micrantha Harms",
 "Continent is Africa"
 ]
}

 The dataset includes 485 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004756-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14587650
title: Dataset for the manuscript entitled "Nickel hyperaccumulation is independent of the leaf economics spectrum, although it may be linked to plant water balance in an ultramafic plant community from Sabah (Malaysia)"

description: Dataset of a field study on the leaf functional traits of nickel hyperaccumulators growing on ultramafic soils from Sabah (Malaysia).

Four files are included:

"readme.txt" is a file where we explain the meaning of each column (and in which units is expressed) in each of the other four files.

"species_list.csv" is a table with the scientific names, the codes and the type (hyperaccumulator or non-hyperaccumulator) of the 15 used species.

"plant_dataset.csv" is a table providing the data on different leaf functional traits (LDMC, SLA, carbon isotope discrimination and concentrations of C, N, Ca, K, Mg, Ni and P).

"soil_dataset.csv" is a table with the pH, water availability parameters, cation exchange capacity and concentrations (pseudototal, exchangeable or DTPA-extractable) of different chemical elements in the soil samples.
DOI: 10.5281/zenodo.14587651
title: Dataset for the manuscript entitled "Nickel hyperaccumulation is independent of the leaf economics spectrum, although it may be linked to plant water balance in an ultramafic plant community from Sabah (Malaysia)"

description: Dataset of a field study on the leaf functional traits of nickel hyperaccumulators growing on ultramafic soils from Sabah (Malaysia).

Four files are included:

"readme.txt" is a file where we explain the meaning of each column (and in which units is expressed) in each of the other four files.

"species_list.csv" is a table with the scientific names, the codes and the type (hyperaccumulator or non-hyperaccumulator) of the 15 used species.

"plant_dataset.csv" is a table providing the data on different leaf functional traits (LDMC, SLA, carbon isotope discrimination and concentrations of C, N, Ca, K, Mg, Ni and P).

"soil_dataset.csv" is a table with the pH, water availability parameters, cation exchange capacity and concentrations (pseudototal, exchangeable or DTPA-extractable) of different chemical elements in the soil samples.
DOI: 10.15468/dl.rxya97
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is USA.6_1",
 "TaxonKey is Bombus variabilis (Cresson, 1872)"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005888-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34965/i11317
title: 20240099-1
DOI: 10.34965/i32528
title: 20240099-2
DOI: 10.34965/i47536
title: 20240099-3
DOI: 10.34965/i53202
title: 20240099-4
DOI: 10.34965/i53288
title: 20240099-5
DOI: 10.34965/i53372
title: 20240099-6
DOI: 10.34965/i53375
title: 20245599-1
DOI: 10.5281/zenodo.10131336
title: Dataset for the manuscript entitled "Can vermicomposting be used to process hyperaccumulator biomass in nickel agromining?"

description: Data generated during an experiment of decomposition of biomass of the nickel hyperaccumulator Bornmuellera emarginata by the earthworm Eisenia andrei and associated microoganisms.
Five files are included:
"readme.txt" is a file where we explain the meaning of each column (and in which units is expressed) in each of the other four files.
"biomass.csv" is a table with biomass of different fractions and the number of Eisenia andrei individuals in each experimental unit.
"FTIR.csv" is a file with the raw spectral data we obtained from the litter by Fourier Transform Infrared spectroscopy combined with Attenuated Total Reflectance (FTIR-ATR). First column indicate the wavenumber (cm-1) and the other columns indicate the absorbance values of each biomass sample for each wavenumber.
"composition.csv" is a file with the pH, electrical conductivity, basal respiration and concentrations of different chemical elements measured in different fractions of each experimental unit
"nickel.csv" contains the pseudototal and DTPA-extractable concentrations of Ni in different compartments of each experimental unit, as well as the total amount of this element (mg of Ni) in each compartment of each experimental unit.
DOI: 10.5281/zenodo.10131337
title: Dataset for the manuscript entitled "Can vermicomposting be used to process hyperaccumulator biomass in nickel agromining?"

description: Data generated during an experiment of decomposition of biomass of the nickel hyperaccumulator Bornmuellera emarginata by the earthworm Eisenia andrei and associated microoganisms.
Five files are included:
"readme.txt" is a file where we explain the meaning of each column (and in which units is expressed) in each of the other four files.
"biomass.csv" is a table with biomass of different fractions and the number of Eisenia andrei individuals in each experimental unit.
"FTIR.csv" is a file with the raw spectral data we obtained from the litter by Fourier Transform Infrared spectroscopy combined with Attenuated Total Reflectance (FTIR-ATR). First column indicate the wavenumber (cm-1) and the other columns indicate the absorbance values of each biomass sample for each wavenumber.
"composition.csv" is a file with the pH, electrical conductivity, basal respiration and concentrations of different chemical elements measured in different fractions of each experimental unit
"nickel.csv" contains the pseudototal and DTPA-extractable concentrations of Ni in different compartments of each experimental unit, as well as the total amount of this element (mg of Ni) in each compartment of each experimental unit.
DOI: 10.5281/zenodo.15103784
title: Lower bounds on entanglement entropy without twin copy

description: This is the set of json files containing the raw Aquila data for a chain of 10 Rydberg atoms described in arXiv:2404.09935. There are two runs (file name: run1... or run2...) and 8 files for each run, corresponding to the the values Rb/a=1.1, 1.2, ..., 1.8. For instance the file for run 1 and Rb/a=1.3 is called run1s3.json.

There is a jupyter notebook to read the data called readjson.ipynb
DOI: 10.5281/zenodo.15103785
title: Lower bounds on entanglement entropy without twin copy

description: This is the set of json files containing the raw Aquila data for a chain of 10 Rydberg atoms described in arXiv:2404.09935. There are two runs (file name: run1... or run2...) and 8 files for each run, corresponding to the the values Rb/a=1.1, 1.2, ..., 1.8. For instance the file for run 1 and Rb/a=1.3 is called run1s3.json.

There is a jupyter notebook to read the data called readjson.ipynb
DOI: 10.15468/dl.rbvazt
title: Occurrence Download

description: A dataset listing the 96 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Jamaica",
 "Geometry POLYGON((-77.06322 17.86655,-77.04293 17.85637,-77.03976 17.87349,-77.05437 17.88056,-77.05622 17.8799,-77.05972 17.87528,-77.06296 17.87323,-77.0615 17.86953,-77.06322 17.86655))",
 "HasCoordinate is true",
 "TaxonKey is Plantae"
 ]
}

 The dataset's 96 records were derived from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005889-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kdgw3v
title: Occurrence Download

description: A dataset containing 1097176 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Belgium, Germany, Netherlands)",
 "TaxonKey is one of (Ondatra zibethicus (Linnaeus, 1766), Myocastor coypus (Molina, 1782))",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 1097176 records from 77 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005885-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/11200770
title: UK Property Price official data (Monthly Update)
DOI: 10.15468/dl.ryug7w
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Angola",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Brachystegia spiciformis Benth."
 ]
}

 The dataset includes 79 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005891-250325103851331/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15097620
title: Benchmark Dataset for Symmetry-Corrected RMSD Tools (FlashRMSD Study)

description: Overview

This dataset accompanies our research on benchmarking RMSD (Root Mean Square Deviation) calculation tools in the context of molecular conformer comparison. It contains curated molecular pose sets specifically designed to evaluate tool performance under realistic and structurally challenging scenarios.

The dataset is derived from two primary sources:





Chemical Component Dictionary (CCD) – 44,901 small molecules commonly used in macromolecular crystallography.




Biologically Interesting molecule Reference Dictionary (BIRD) – 805 biologically relevant non-polymeric molecules.



Each entry includes multiple (at most 9) conformations of the same molecule, structured for use in both pairwise RMSD and cross-RMSD benchmarks. The dataset emphasizes:





Molecules with high structural diversity




Macrocyclic architectures and branching motifs




Challenging symmetric or pseudo-symmetric cases that test the limits of RMSD algorithms



Dataset Structure

The dataset is systematically organized to ensure ease of access and usability across different benchmarking scenarios.

📁 Top-Level Directory Organization

Molecules are grouped by their source repository:





CCD/[MOLECULE_ID]/ – for molecules sourced from the Chemical Component Dictionary




BIRD/[MOLECULE_ID]/ – for molecules sourced from the Biologically Interesting molecule Reference Dictionary



📂 Per-Molecule Directory Structure

Each molecule is stored in its own folder named after its unique identifier. Inside each folder, the following files are provided:





all_poses.sdf – Multi-conformer file in SDF format (all poses in one file)




all_poses.mol2 – Multi-conformer file in MOL2 format




pose_X.sdf – Individual pose file (pose X) in SDF format




pose_X.mol2 – Individual pose file (pose X) in MOL2 format



This structure supports both tools that operate on single-file multi-conformer input and those that require pose-pair file separation.

A results.csv file is included, containing the ground truth cross-RMSD values for each molecule in the dataset. For entries where RMSD values could not be computed, the corresponding fields are left blank.