cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.ymt21x
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Machaerium erianthum Benth."
 ]
}

 The dataset includes 8 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003005-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.i5ef8q
title: Occurrence Download

description: A dataset containing 626 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is India",
 "TaxonKey is Begonia L."
 ]
}

 The dataset includes 626 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002698-180925134338326/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tzzkwu
title: Occurrence Download

description: A dataset containing 13250 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Chenopodium album subsp. album"
 ]
}

 The dataset includes 13250 records from 97 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047656-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ctvfzg
title: Occurrence Download

description: A dataset containing 8676 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Heliornis fulica (Boddaert, 1783)"
 ]
}

 The dataset includes 8676 records from 92 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055600-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3agkur
title: Occurrence Download

description: A dataset containing 650 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pheidole pallidula (Nylander, 1849)"
 ]
}

 The dataset includes 650 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002698-181003121212138/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7b6h69
title: Occurrence Download

description: A dataset containing 795 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Netherlands",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Plebejus argus (Linnaeus, 1758)",
 "Year 1970-2000"
 ]
}

 The dataset includes 795 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047649-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.14fqq2
title: Occurrence Download

description: A dataset containing 89 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((119.78614 26.84619,118.27442 24.80713,118.06348 19.92041,125.86816 20.76416,126.81739 27.05713,119.78614 26.84619))",
 "TaxonKey is Berberis japonica (Thunb.) Spreng."
 ]
}

 The dataset includes 89 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003005-190415153152247/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2pczqm
title: Occurrence Download

description: A dataset containing 45828 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Myocastor coypus (Molina, 1782)"
 ]
}

 The dataset includes 45828 records from 434 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046124-200221144449610/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vmzrbc
title: Occurrence Download

description: A dataset containing 323145 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Pakistan",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 323145 records from 377 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055016-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dy4n27
title: Occurrence Download

description: A dataset containing 10888 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Abies pinsapo Boiss."
 ]
}

 The dataset includes 10888 records from 130 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0043447-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f56mae
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Artemisia nigricans Filatova & Ladygina"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016746-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b6skrf
title: Occurrence Download

description: A dataset containing 97 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thinopyrum bessarabicum (Savul. & Rayss) Á.Löve",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 97 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079419-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y4kwwp
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Dengue virus"
 ]
}

 The dataset includes 48 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008682-190813142620410/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ywpxpf
title: Occurrence Download

description: A dataset containing 63 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "VerbatimScientificName is Picea schrenkiana"
 ]
}

 The dataset includes 63 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0230018-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4cm2cx
title: Occurrence Download

description: A dataset containing 32 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thesium italicum A.DC.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 32 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079439-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dwdaoa
title: Occurrence Download

description: A dataset listing the 13 species recorded in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Lepus americanus Erxleben, 1777",
 "HasGeospatialIssue is false"
 ]
}

 The dataset's 13 records were derived from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015723-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xbvc7y
title: Occurrence Download

description: A dataset listing the 4 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Scleria eggersiana Boeckeler"
 ]
}

 The dataset's 4 records were derived from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015733-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zcsx78
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Elephant Seal Sightings, Macquarie Island"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0239404-200613084148143/datasets/export for details.
DOI: 10.15468/dl.qsv5cz
title: Occurrence Download

description: A dataset listing the 428 species recorded in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Material sample",
 "BasisOfRecord is Literature Occurrence",
 "BasisOfRecord is Specimen",
 "BasisOfRecord is Living Specimen",
 "BasisOfRecord is Human Observation"
 ]
 },
 "CoordinateUncertaintyInMeters 0.0-3150.0",
 "Geometry POLYGON((7.04777 53.50852,7.04885 53.50765,7.04919 53.50918,7.04679 53.51163,7.04198 53.51592,7.03923 53.51908,7.03923 53.51908,7.03528 53.52643,7.0334 53.53021,7.03305 53.53317,7.03455 53.53454,7.0361 53.53561,7.03713 53.53653,7.03747 53.53827,7.03747 53.53919,7.0397 53.53949,7.04065 53.53837,7.04099 53.53714,7.04142 53.53633,7.04348 53.53663,7.04563 53.53638,7.04915 53.53526,7.06019 53.5254,7.06117 53.52444,7.06329 53.52199,7.06436 53.52007,7.06578 53.51725,7.06692 53.51552,7.06925 53.51398,7.0724 53.51327,7.07954 53.51345,7.08397 53.51332,7.09647 53.51135,7.09835 53.51115,7.10341 53.51074,7.10706 53.51082,7.1086 53.51102,7.11225 53.51163,7.11942 53.51385,7.12581 53.51765,7.13073 53.52112,7.12669 53.52398,7.08275 53.55092,7.05357 53.56274,7.02232 53.55418,6.99245 53.54112,7.00001 53.51051,7.04777 53.50852))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset's 428 records were derived from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0324915-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qm28hx
title: Occurrence Download

description: A dataset containing 8365 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Comastoma tenellum (Rottb.) Toyok.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 8365 records from 191 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079434-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4dyhrz
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cyperus stergiosii G.C.Tucker"
 ]
}

 The dataset includes 8 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0154416-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tulgns
title: Occurrence Download

description: A dataset containing 318 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Scleria eggersiana Boeckeler"
 ]
}

 The dataset includes 318 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015730-190621201848488/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qhx558
title: Occurrence Download

description: A dataset containing 287259 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Comarum palustre L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 287259 records from 772 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0079417-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4qq8fu
title: Occurrence Download

description: A dataset containing 81554 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Year is greater than 1990",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is one of (Arctocephalus philippii townsendi Merriam, 1897, Cricetulus barabensis (Pallas, 1773), Erethizon dorsatus (Linnaeus, 1758), Puma yagouaroundi fossata (Mearns, 1901), Uncia uncia (Schreber, 1775), Manis tricuspis Rafinesque, 1821, Pseudocheirus peregrinus occidentalis (Thomas, 1888), Pteropus medius Temminck, 1825, Acrocodia indica (Desmarest, 1819), Delphinus delphis Linnaeus, 1758, Histriophoca fasciata (Zimmermann, 1783), Cercopithecus mitis kandti Matschie, 1905, Artibeus phaeotis phaeotis, Leopardus geoffroyi (d'Orbigny & Gervais, 1844), Felis manul Pallas, 1776, Corynorhinus townsendii (Cooper, 1837), Xerospermophilus spilosoma (Bennett, 1833), Ictidomys tridecemlineatus (Mitchill, 1821))"
 ]
}

 The dataset includes 81554 records from 471 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0074631-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9c8qqn
title: Occurrence Download

description: A dataset containing 53827 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Senecio vulgaris subsp. vulgaris)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 53827 records from 348 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040371-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gc43yh
title: Occurrence Download

description: A dataset containing 41 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Ecuador",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Handroanthus billbergii (Bureau & K.Schum.) S.O.Grose"
 ]
}

 The dataset includes 41 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040372-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ygkh5p
title: Occurrence Download

description: A dataset containing 103 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Senegalia burkei (Benth.) Kyal. & Boatwr.)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 103 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040373-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p566zp
title: Occurrence Download

description: A dataset containing 19 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Senegalia chundra (Roxb. ex Rottler) Maslin)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 19 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040374-240626123714530/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.26362984
title: <b>Real-Road Driving Experiments</b>Data extracted for all participants

description: This research focuses on forecasting driver fatigue by utilizing physiological indicators and exploring the connection between these indicators and driver fatigue. To achieve this, real-world driving experiments were carried out with 16 participants, employing non-intrusive techniques to gather physiological data such as electrodermal activity, heart rate, and skin temperature. Neural Networks were then used to predict fatigue levels.
DOI: 10.15468/dl.rh2mag
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Senegalia hayesii (Benth.) Britton & Rose)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040375-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7sgust
title: Occurrence Download

description: A dataset containing 386 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Senegalia pennata (L.) Maslin)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 386 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040376-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tf7ba3
title: Occurrence Download

description: A dataset containing 4588 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Senegalia polyphylla (DC.) Britton & Rose)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 4588 records from 48 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0040378-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13119437
title: Bio-ML: Machine Learning-Friendly Biomedical Datasets for Equivalence and Subsumption Ontology Matching

description:  



This version is used in the Bio-ML track of the OAEI 2024; the only change compared to the OAEI 2023 is the deletion of certain training subsumption mappings.


 

Overview

The purpose of these datasets is to support equivalence and subsumption ontology matching.

There are five ontology pairs extracted from MONDO and UMLS:




Source
Task
Category
#SrcCls
#TgtCls
#Ref (equiv)
#Ref (subs)


Mondo
OMIM-ORDO
Disease
9,648
9,275
3,721
103


Mondo
NCIT-DOID
Disease
15,762
8,465
4,686
3,338 (-1)


UMLS
SNOMED-FMA
Body
34,418
88,955
7,256
5,453 (-53)


UMLS
SNOMED-NCIT
Pharm
29,500
22,136
5,803
4,224 (-1)


UMLS
SNOMED-NCIT
Neoplas
22,971
20,247
3,804
213




The "-" numbers reflect the changes due to lthe deletion of certain training subsumption mappings.

The main track is available at "bio-ml", where each pair is associated with a task folder, containing the source and target ontologies, reference equivalence mappings (in "refs_equiv"), reference subsumption mappings ("refs_subs"). 

The special sub-track is available at "bio-llm", where each pair is associated with a task folder, containing the source and target ontologies, and the test candidate mappings. 

 

Citation

Bio-ML (Main Track)

```@inproceedings{he2022machine,
  title={Machine learning-friendly biomedical datasets for equivalence and subsumption ontology matching},
  author={He, Yuan and Chen, Jiaoyan and Dong, Hang and Jim{\'e}nez-Ruiz, Ernesto and Hadian, Ali and Horrocks, Ian},
  booktitle={International Semantic Web Conference},
  pages={575--591},
  year={2022},
  organization={Springer}
}```

Bio-LLM (Sub-track)

```@article{he2023exploring,
  title={Exploring large language models for ontology alignment},
  author={He, Yuan and Chen, Jiaoyan and Dong, Hang and Horrocks, Ian},
  journal={arXiv preprint arXiv:2309.07172},
  year={2023}
}```

 

Important Links



See detailed documentation at: https://krr-oxford.github.io/DeepOnto/bio-ml.

See the OAEI Bio-ML track at: https://www.cs.ox.ac.uk/isg/projects/ConCur/oaei/

See our resource paper for the original Bio-ML at arxiv or springer (accepted at ISWC-2022 and nominated as the best resource paper candidate). See our poster paper for the Bio-LLM sub-track at arxiv (accepted at ISWC-2023 Posters & Demos).


 

Changelog

The only change in this version compared to the OAEI 2023 is the deletion of certain training subsumption mappings that can be directly exploited through deductive reasoning.