cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.9ds8jx
title: Occurrence Download

description: A dataset containing 5175 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Month is one of (August, September, July, June, May, April)",
 "OccurrenceStatus is Present",
 "TaxonKey is Eubalaena glacialis (Müller, 1776)",
 "Year 2000-2024"
 ]
}

 The dataset includes 5175 records from 41 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156409-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9y8tt0
title: Occurrence Download

description: A dataset containing 204 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Human Observation"
 ]
 },
 "Country is Nepal",
 "HasCoordinate is true",
 "TaxonKey is Motacilla cinerea Tunstall, 1771",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 204 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010572-170714134226665/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kp6cbn
title: Occurrence Download

description: A dataset containing 154 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Odontophrynus occidentalis (Berg, 1896)"
 ]
}

 The dataset includes 154 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020761-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hqa5w7
title: Occurrence Download

description: A dataset containing 1280948 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Europe",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Plantae",
 "Year 2015-2015"
 ]
}

 The dataset includes 1280948 records from 54 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0242407-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6i5yol
title: Occurrence Download

description: A dataset containing 883 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gallinago paraguaiae (Vieillot, 1816)",
 "HasGeospatialIssue is false",
 "Geometry POLYGON((-62.31 -34.62,-62.31 -1.87,-7.21 -1.87,-7.21 -34.62,-62.31 -34.62))"
 ]
}

 The dataset includes 883 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009622-160623103540712/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bx3zkv
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Epidendrum yanachagaense Hágsater"
 ]
}

 The dataset includes 13 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156410-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fhbm74
title: Occurrence Download

description: A dataset containing 9983 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Euphrasia slovaca (Yeo) Holub, Euphrasia stricta J.P.Wolff ex J.F.Lehm., Euphrasia taurica Ganesch., Euphrasia tetraquetra (Bréb.) Arrond., Euphrasia tricuspidata L., Euphrasia vigursii Davey, Euphrasia wettsteinii G.L.Gusarova, Euphrasia willkommii Freyn, Eurybia divaricata (L.) G.L.Nesom, Eurybia macrophylla (L.) Cass.)",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "DatasetKey is one of (Pl@ntNet automatically identified occurrences, Pl@ntNet observations, iNaturalist Research-grade Observations, Observation.org, Nature data from around the World, naturgucker, Artportalen (Swedish Species Observation System), Norwegian Species Observation Service, Programme d'observation naturaliste participative avec l'application mobile INPN Espèces - Application INPN Espèces: Observations naturalistes, participatives et opportunistes, fondées sur des photographies, Species recordings from the Danish National portal Arter.dk, Lajitietokeskus/FinBIF - Notebook, general observations, Vascular plant records verified via iRecord, iRecord Surveys)",
 "Continent is Europe",
 "OccurrenceStatus is Present",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 500",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000"
 ]
}

 The dataset includes 9983 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069437-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k3g7zs
title: Occurrence Download

description: A dataset listing the 2 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sagartiogeton californicus (Carlgren, 1940)"
 ]
}

 The dataset's 2 records were derived from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0245162-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.znjlua
title: Occurrence Download

description: A dataset containing 1356 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Amanita Pers.",
 "Country is Japan"
 ]
}

 The dataset includes 1356 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009622-160822134323880/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.amb589
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Elleanthus thomasii Dodson ex Dudek & Szlach."
 ]
}

 The dataset includes 6 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156411-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pfxsyw
title: Occurrence Download

description: A dataset containing 260806 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Fagopyrum tataricum (L.) Gaertn., Fagus orientalis Lipsky, Fagus sylvatica L., Falcaria vulgaris Bernh., Fallopia ×heterocarpa (Beck) Doweld, Fallopia baldschuanica (Regel) Holub, Fallopia convolvulus (L.) Á.Löve, Fallopia dumetorum (L.) Holub, Fargesia murielae (Gamble) T.P.Yi, Fedia cornucopiae (L.) Gaertn.)",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "DatasetKey is one of (Pl@ntNet automatically identified occurrences, Pl@ntNet observations, iNaturalist Research-grade Observations, Observation.org, Nature data from around the World, naturgucker, Artportalen (Swedish Species Observation System), Norwegian Species Observation Service, Programme d'observation naturaliste participative avec l'application mobile INPN Espèces - Application INPN Espèces: Observations naturalistes, participatives et opportunistes, fondées sur des photographies, Species recordings from the Danish National portal Arter.dk, Lajitietokeskus/FinBIF - Notebook, general observations, Vascular plant records verified via iRecord, iRecord Surveys)",
 "Continent is Europe",
 "OccurrenceStatus is Present",
 "HasCoordinate is true",
 "CoordinateUncertaintyInMeters is less than or equal to 500",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000"
 ]
}

 The dataset includes 260806 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069439-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vveadh
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Epidendrum igneum Hágsater"
 ]
}

 The dataset includes 14 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156412-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nvqchp
title: Occurrence Download

description: A dataset containing 75 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eleutherodactylus varleyi Dunn, 1925",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 75 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009622-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bhjv2c
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Arachniodes gigantea Ching"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0245184-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.34hdjt
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Diospyros reinae B.Walln."
 ]
}

 The dataset includes 9 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156414-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mevjea
title: Occurrence Download

description: A dataset containing 143 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dicerandra fumella Huck"
 ]
}

 The dataset includes 143 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0156413-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pbt4en
title: Occurrence Download

description: A dataset containing 471 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Idionycteris phyllotis (G.M.Allen, 1916)"
 ]
}

 The dataset includes 471 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005366-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2se7z4
title: Occurrence Download

description: A dataset containing 13976 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ageratina adenophora (Spreng.) R.M.King & H.Rob.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 13976 records from 163 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0069441-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ptdcd2
title: Occurrence Download

description: A dataset containing 306846 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "GadmGid is MEX.3.1_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Aves"
 ]
}

 The dataset includes 306846 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0250650-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.liyodj
title: Occurrence Download

description: A dataset containing 6732 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myiodynastes luteiventris P.L.Sclater, 1859",
 "Geometry POLYGON((-109.160156 37.055177,-109.053039 31.334871,-111.074523 31.332525,-114.813566 32.494053,-114.815969 32.497021,-114.818372 32.498180,-114.818286 32.499193,-114.816999 32.500713,-114.812192 32.503319,-114.808416 32.507083,-114.811248 32.625496,-114.724731 32.727219,-114.592895 32.736461,-114.535217 32.761871,-114.532470 32.801127,-114.472045 32.847288,-114.494018 33.022481,-114.680786 33.054716,-114.724731 33.408516,-114.505004 33.879537,-114.532470 33.984363,-114.362182 34.134541,-114.120483 34.311681,-114.417114 34.492975,-114.647827 34.876918,-114.691772 35.146862,-114.752197 36.084621,-114.334716 36.226550,-114.049072 36.288563,-114.038085 37.002552,-109.160156 37.055177))",
 "DatasetKey is EOD – eBird Observation Dataset"
 ]
}

 The dataset includes 6732 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009622-170714134226665/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sylurl
title: Occurrence Download

description: A dataset containing 79 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Muricea fruticosa Verrill, 1869"
 ]
}

 The dataset includes 79 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003657-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mz46z3
title: Occurrence Download

description: A dataset containing 4703 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hypholoma elongatum (Pers.) Ricken"
 ]
}

 The dataset includes 4703 records from 179 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004994-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.568tkq
title: Occurrence Download

description: A dataset containing 5628 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Global Register of Introduced and Invasive Species - Hawaii, United States (ver.2.0, 2022)"
 ]
}

 The dataset includes 5628 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004997-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13956882
title: Invasion Biology WikiProject Scientific Papers: Text Data Mining and LLM-based Information Extraction of Species, Locations, Habitats, and Ecosystems

description: This dataset contains the abstract and full-text for publication DOIs from the Invasion Biology WikiProject (DOI: 10.5281/zenodo.12518036). The data was retrieved using the ask.orkg.org API. For the script used to obtain the data, refer to the accompanying GitHub repository: https://github.com/jd-coderepos/invasion-biology-IE/.

The resulting CSV file includes the following fields: "ASK ID", "DOI", "Title", "Abstract", and "Full-text".

Of the 49,438 queried DOIs, the ASK database provided:



Total DOIs processed: 12,636

DOIs with neither abstract nor full-text: 36 (abstract token count was less than 10)

DOIs with abstracts but no full-text: 12,636

DOIs with both abstract and full-text: 2,834


The second part of the dataset contains structured information extracted from the publications using the GPT-4o Large Language Model. This structured data is included in the zipped folder structured-publications.zip.

The accompanying GitHub repository provides access to the code and scripts used at various stages of the information extraction (IE) process.

Theme of the Study:"Mining for Species, Locations, Habitats, and Ecosystems from Scientific Papers in Invasion Biology: A Large-Scale Exploratory Study with Large Language Models."
DOI: 10.5281/zenodo.13956883
title: ASK ORKG Text Data Mining Corpus for Invasion Biology WikiProject Papers

description: This dataset contains the abstract and full-text for publication DOIs from the Invasion Biology WikiProject (DOI: 10.5281/zenodo.12518036). The data was retrieved using the ask.orkg.org API. 

The resulting CSV file includes: "ASK ID", "DOI", "Title", "Abstract", and "Full-text".

Of the 49,438 queried DOIs, the ASK database provided:

Total DOIs processed: 12,636  



DOIs with neither abstract nor full-text: 36 (abstract token count was less than 10)  

DOIs with abstracts but no full-text: 9,766  

DOIs with both abstract and full-text: 2,816
DOI: 10.5281/zenodo.14525346
title: Invasion Biology WikiProject Scientific Papers: Text Data Mining and LLM-based Information Extraction of Species, Locations, Habitats, and Ecosystems

description: This dataset contains the abstract and full-text for publication DOIs from the Invasion Biology WikiProject (DOI: 10.5281/zenodo.12518036). The data was retrieved using the ask.orkg.org API. 

The resulting CSV file includes the following fields: "ASK ID", "DOI", "Title", "Abstract", and "Full-text".

Of the 49,438 queried DOIs, the ASK database provided:



Total DOIs processed: 12,636

DOIs with neither abstract nor full-text: 36 (abstract token count was less than 10)

DOIs with abstracts but no full-text: 9,766

DOIs with both abstract and full-text: 2,816


The second part of the dataset contains structured information extracted from the publications using the GPT-4o Large Language Model. This structured data is included in the zipped folder structured-publications.zip.

The accompanying GitHub repository provides access to the code and scripts used at various stages of the information extraction (IE) process.

Theme of the Study:"Mining for Species, Locations, Habitats, and Ecosystems from Scientific Papers in Invasion Biology: A Large-Scale Exploratory Study with Large Language Models."
DOI: 10.5281/zenodo.14525619
title: Invasion Biology WikiProject Scientific Papers: Text Data Mining and LLM-based Information Extraction of Species, Locations, Habitats, and Ecosystems

description: This dataset contains the abstract and full-text for publication DOIs from the Invasion Biology WikiProject (DOI: 10.5281/zenodo.12518036). The data was retrieved using the ask.orkg.org API. For the script used to obtain the data, refer to the accompanying GitHub repository: https://github.com/jd-coderepos/invasion-biology-IE/.

The resulting CSV file includes the following fields: "ASK ID", "DOI", "Title", "Abstract", and "Full-text".

Of the 49,438 queried DOIs, the ASK database provided:



Total DOIs processed: 12,636

DOIs with neither abstract nor full-text: 36 (abstract token count was less than 10)

DOIs with abstracts but no full-text: 12,636

DOIs with both abstract and full-text: 2,834


The second part of the dataset contains structured information extracted from the publications using the GPT-4o Large Language Model. This structured data is included in the zipped folder structured-publications.zip.

The accompanying GitHub repository provides access to the code and scripts used at various stages of the information extraction (IE) process.

Theme of the Study:"Mining for Species, Locations, Habitats, and Ecosystems from Scientific Papers in Invasion Biology: A Large-Scale Exploratory Study with Large Language Models."
DOI: 10.5281/zenodo.14604802
title: supporting_data_for_Endomicroscopic_AI-driven_morphochemical_imaging_and_fs-laser_ablation_ for_selective_tumor_identification_and_selective_tissue_removal

description: Supporting data for the study reported in Calvarese et al. "Endomicroscopic AI-driven morphochemical imaging and fs-laser ablation for selective tumor identification and selective tissue removal", 2024 [1].

00_Readme.txt file contains information about the structure and content of the data.

01_Figures contains the data and information displayed in the manuscript's figures.

02_Data contains the raw and processed data acquired in the investigation.
DOI: 10.5281/zenodo.14604803
title: supporting_data_for_Endomicroscopic_AI-driven_morphochemical_imaging_and_fs-laser_ablation_ for_selective_tumor_identification_and_selective_tissue_removal

description: Supporting data for the study reported in Calvarese et al. "Endomicroscopic AI-driven morphochemical imaging and fs-laser ablation for selective tumor identification and selective tissue removal", 2024 [1].

00_Readme.txt file contains information about the structure and content of the data.

01_Figures contains the data and information displayed in the manuscript's figures.

02_Data contains the raw and processed data acquired in the investigation.
DOI: 10.5281/zenodo.10932956
title: AAA-100: A Curated Dataset of 3D Watertight Abdominal Aortic Aneurysm Models

description: An abdominal aortic aneurysm (AAA) is a local dilatation of the abdominal aorta exceeding 30 mm that might rupture, with fatal outcomes in 70-80% of cases. Personalized 3D models of AAAs, including surrounding vasculature such as iliac and renal arteries play an important role in tailored clinical decision-making for AAA patients. Models could be used for, e.g., AAA growth modeling, stentgraft sizing and positioning for endovascular aorta repair (EVAR) procedures, or 3D printing for surgical practice. Extracting high-quality 3D arterial models from imaging modalities such as computed tomography angiography (CTA) is a time-consuming and challenging problem. For downstream applications such as computational fluid dynamics (CFD) or shape analysis, models should have sub-voxel accuracy, be watertight, and adhere to topological constraints. We present the AAA-100 dataset, containing 100 detailed 3D AAA models with consistent anatomical boundaries acquired semi-automatically from pre-operative CTA scans. These models span a wide range of possible AAA pathology. Moreover, all models are carefully curated to be anatomically and topologically correct. 

A detailed description of the data set and file structure is provided in description.pdf.

We kindly ask you to cite the following works when using the AAA-100 dataset in your research



Alblas, D., Suk, J., Brune, C., Yeung, K. K., & Wolterink, J. M. (2025). SIRE: Scale-invariant, rotation-equivariant estimation of artery orientations using graph neural networks. Medical Image Analysis, 103467.

Rygiel, P., Alblas, D., Brune, C., Yeung, K. K., & Wolterink, J. M. (2024). Global Control for Local SO (3)-Equivariant Scale-Invariant Vessel Segmentation. arXiv preprint arXiv:2403.15314.