cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.1345759
title: Isawnyu/Pleiades-Datasets: Pleiades Datasets 1.0

description: The first (and long-awaited) production release of the Pleiades Datasets package.

This is a package of data derived from the <em>Pleiades</em> gazetteer of ancient places. It is used for archival and redistribution purposes and is likely to be less up-to-date than the live data at https://pleiades.stoa.org.

<em>Pleiades</em> is a community-built gazetteer and graph of ancient places. It publishes authoritative information about ancient places and spaces, providing unique services for finding, displaying, and reusing that information under open license. It publishes not just for individual human users, but also for search engines and for the widening array of computational research and visualization tools that support humanities teaching and research.

<em>Pleiades</em> is a continuously published scholarly reference work for the 21st century. We embrace the new paradigm of citizen humanities, encouraging contributions from any knowledgeable person and doing so in a context of pervasive peer review. <em>Pleiades</em> welcomes your contribution, no matter how small, and we have a number of useful tasks suitable for volunteers of every interest.
description: Pleiades has received significant, periodic support from the National Endowment for the Humanities since 2006. Grant numbers: HK-230973-15, PA-51873-06, PX-50003-08, and PW-50557-10. Any views, findings, conclusions, or recommendations expressed in this publication do not necessarily reflect those of the National Endowment for the Humanities.
DOI: 10.5281/zenodo.2620595
title: isawnyu/pleiades-datasets: Pleiades Datasets 1.1

description: Updated JSON, CSV, and RDF/TTL exports from the <em>Pleiades</em> gazetteer of ancient places.

This is a package of data derived from the <em>Pleiades</em> gazetteer of ancient places. It is used for archival and redistribution purposes and is likely to be less up-to-date than the live data at https://pleiades.stoa.org.

<em>Pleiades</em> is a community-built gazetteer and graph of ancient places. It publishes authoritative information about ancient places and spaces, providing unique services for finding, displaying, and reusing that information under open license. It publishes not just for individual human users, but also for search engines and for the widening array of computational research and visualization tools that support humanities teaching and research.

<em>Pleiades</em> is a continuously published scholarly reference work for the 21st century. We embrace the new paradigm of citizen humanities, encouraging contributions from any knowledgeable person and doing so in a context of pervasive peer review. <em>Pleiades</em> welcomes your contribution, no matter how small, and we have a number of useful tasks suitable for volunteers of every interest.
description: Pleiades has received significant, periodic support from the National Endowment for the Humanities since 2006. Grant numbers: HK-230973-15, PA-51873-06, PX-50003-08, and PW-50557-10. Any views, findings, conclusions, or recommendations expressed in this publication do not necessarily reflect those of the National Endowment for the Humanities.
DOI: 10.5281/zenodo.2642539
title: isawnyu/pleiades-datasets: Pleiades datasets 2.0

description: We increment our major version number 2.0 to reflect the fact that this release greatly enhances the content of our JSON export files in two critical ways:


	All attributes of all published "connection" objects are now included in a new "connections" array within the containing "place" object
	All vocabulary terms, previously represented only with their alphanumeric keys, now also are represented with full URIs that resolve to the appropriate term definition at https://pleiades.stoa.org/vocabularies/.


This is a package of data derived from the <em>Pleiades</em> gazetteer of ancient places. It is used for archival and redistribution purposes and is likely to be less up-to-date than the live data at https://pleiades.stoa.org.

<em>Pleiades</em> is a community-built gazetteer and graph of ancient places. It publishes authoritative information about ancient places and spaces, providing unique services for finding, displaying, and reusing that information under open license. It publishes not just for individual human users, but also for search engines and for the widening array of computational research and visualization tools that support humanities teaching and research.

<em>Pleiades</em> is a continuously published scholarly reference work for the 21st century. We embrace the new paradigm of citizen humanities, encouraging contributions from any knowledgeable person and doing so in a context of pervasive peer review. <em>Pleiades</em> welcomes your contribution, no matter how small, and we have a number of useful tasks suitable for volunteers of every interest.
description: Pleiades has received significant, periodic support from the National Endowment for the Humanities since 2006. Grant numbers: HK-230973-15, PA-51873-06, PX-50003-08, and PW-50557-10. Any views, findings, conclusions, or recommendations expressed in this publication do not necessarily reflect those of the National Endowment for the Humanities.
DOI: 10.5281/zenodo.3689790
title: isawnyu/pleiades-datasets: Pleiades Datasets 2.1

description: Updates and additions to content through 27 February 2020. This is a package of data derived from the <em>Pleiades</em> gazetteer of ancient places. It is used for archival and redistribution purposes and is likely to be less up-to-date than the live data at https://pleiades.stoa.org. <em>Pleiades</em> is a community-built gazetteer and graph of ancient places. It publishes authoritative information about ancient places and spaces, providing unique services for finding, displaying, and reusing that information under open license. It publishes not just for individual human users, but also for search engines and for the widening array of computational research and visualization tools that support humanities teaching and research. <em>Pleiades</em> is a continuously published scholarly reference work for the 21st century. We embrace the new paradigm of citizen humanities, encouraging contributions from any knowledgeable person and doing so in a context of pervasive peer review. <em>Pleiades</em> welcomes your contribution, no matter how small, and we have a number of useful tasks suitable for volunteers of every interest.
description: Pleiades has received significant, periodic support from the National Endowment for the Humanities since 2006. Grant numbers: HK-230973-15, PA-51873-06, PX-50003-08, and PW-50557-10. Any views, findings, conclusions, or recommendations expressed in this publication do not necessarily reflect those of the National Endowment for the Humanities.
description: {"references": ["Bagnall, R. S., Talbert, R. J. A., New York University., Stoa Consortium., & University of North Carolina at Chapel Hill. (2000). Pleiades: A community-built gazetteer and graph of ancient places. Chapel Hill: Ancient World Mapping Center."]}
DOI: 10.5281/zenodo.3743435
title: isawnyu/pleiades-datasets: Pleiades Datasets 2.2

description: Updates and additions to published content of the Pleiades gazetteer of ancient places through 7 April 2020. This is a package of data derived from the <em>Pleiades</em> gazetteer of ancient places. It is used for archival and redistribution purposes and is likely to be less up-to-date than the live data at https://pleiades.stoa.org. <em>Pleiades</em> is a community-built gazetteer and graph of ancient places. It publishes authoritative information about ancient places and spaces, providing unique services for finding, displaying, and reusing that information under open license. It publishes not just for individual human users, but also for search engines and for the widening array of computational research and visualization tools that support humanities teaching and research. <em>Pleiades</em> is a continuously published scholarly reference work for the 21st century. We embrace the new paradigm of citizen humanities, encouraging contributions from any knowledgeable person and doing so in a context of pervasive peer review. <em>Pleiades</em> welcomes your contribution, no matter how small, and we have a number of useful tasks suitable for volunteers of every interest.
description: Pleiades has received significant, periodic support from the National Endowment for the Humanities since 2006. Grant numbers: HK-230973-15, PA-51873-06, PX-50003-08, and PW-50557-10. Any views, findings, conclusions, or recommendations expressed in this publication do not necessarily reflect those of the National Endowment for the Humanities.
description: {"references": ["Bagnall, R. S., Talbert, R. J. A., New York University., Stoa Consortium., & University of North Carolina at Chapel Hill. (2000). Pleiades: A community-built gazetteer and graph of ancient places. Chapel Hill: Ancient World Mapping Center."]}
DOI: 10.5281/zenodo.4081647
title: isawnyu/pleiades.datasets: Pleiades Datasets 2.3

description: Updates and additions to published content of the Pleiades gazetteer of ancient places through 12 October 2020. This is a package of data derived from the <em>Pleiades</em> gazetteer of ancient places. It is used for archival and redistribution purposes and is likely to be less up-to-date than the live data at https://pleiades.stoa.org. <em>Pleiades</em> is a community-built gazetteer and graph of ancient places. It publishes authoritative information about ancient places and spaces, providing unique services for finding, displaying, and reusing that information under open license. It publishes not just for individual human users, but also for search engines and for the widening array of computational research and visualization tools that support humanities teaching and research. <em>Pleiades</em> is a continuously published scholarly reference work for the 21st century. We embrace the new paradigm of citizen humanities, encouraging contributions from any knowledgeable person and doing so in a context of pervasive peer review. <em>Pleiades</em> welcomes your contribution, no matter how small, and we have a number of useful tasks suitable for volunteers of every interest.
description: Pleiades has received significant, periodic support from the National Endowment for the Humanities since 2006. Grant numbers: HK-230973-15, PA-51873-06, PX-50003-08, and PW-50557-10. Any views, findings, conclusions, or recommendations expressed in this publication do not necessarily reflect those of the National Endowment for the Humanities.
description: {"references": ["Bagnall, R. S., Talbert, R. J. A., New York University., Stoa Consortium., & University of North Carolina at Chapel Hill. (2000). Pleiades: A community-built gazetteer and graph of ancient places. Chapel Hill: Ancient World Mapping Center."]}
DOI: 10.5281/zenodo.7798875
title: isawnyu/pleiades.datasets: Pleiades Datasets 3.0

description: Updates and additions to published content of the <em>Pleiades</em> gazetteer of ancient places between 12 October 2020 and 4 April 2023. <strong>What's new since 2.3 (12 October 2020):</strong> 2,655 new and 10,222 updated place resources (see <code>data/changelogs/release.html</code> for details) <code>data/bibliography/zotero.csv</code>: The complete bibliographic library cited in references throughout the dataset. <code>data/changelogs/</code>: Monthly changelogs in HTML format since 2009. <code>data/data_quality</code>: Some metrics. <code>data/gis</code>: CSV files tested in QGIS (likely better than the original CSV package, which is now deprecated, for most use cases). Deprecation of legacy CSV export in <code>data/csv</code>. The new <code>data/gis</code> package is likely better for your purposes. <strong>Overview</strong> This is a package of data derived from the <em>Pleiades</em> gazetteer of ancient places. It is used for archival and redistribution purposes and is likely to be <strong>less up-to-date than the live data at https://pleiades.stoa.org.</strong> <em>Pleiades</em> is a community-built gazetteer and graph of ancient places. It publishes authoritative information about ancient places and spaces, providing unique services for finding, displaying, and reusing that information under open license. It publishes not just for individual human users, but also for search engines and for the widening array of computational research and visualization tools that support humanities teaching and research. <em>Pleiades</em> is a continuously published scholarly reference work for the 21st century. We embrace the new paradigm of citizen humanities, encouraging contributions from any knowledgeable person and doing so in a context of pervasive peer review. <em>Pleiades</em> welcomes your contribution, no matter how small, and we have a number of useful tasks suitable for volunteers of every interest.
description: Pleiades has received significant, periodic support from the National Endowment for the Humanities since 2006. Grant numbers: HK-230973-15, PA-51873-06, PX-50003-08, and PW-50557-10. Any views, findings, conclusions, or recommendations expressed in this publication do not necessarily reflect those of the National Endowment for the Humanities.
DOI: 10.5281/zenodo.8206033
title: isawnyu/pleiades.datasets: Pleiades Datasets 3.1

description: Updates and additions to published content of the Pleiades gazetteer of ancient places between 4 April 2023 and 1 August 2023. What's new since 3.0 (4 April 2023): 359 new and 2,380 updated place resources (see <code>data/changelogs/release.html</code> for details)
description: Pleiades has received significant, periodic support from the National Endowment for the Humanities since 2006. Grant numbers: HK-230973-15, PA-51873-06, PX-50003-08, and PW-50557-10. Any views, findings, conclusions, or recommendations expressed in this publication do not necessarily reflect those of the National Endowment for the Humanities.
DOI: 10.15468/dl.yx4vbg
title: Occurrence Download

description: A dataset containing 25060 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Senecio inaequidens",
 "Country is Germany",
 "HasCoordinate is true"
 ]
}

 The dataset includes 25060 records from 71 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0084526-250717081556266/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25954/q1vz-1s72
title: Lipoceramic Technologies: a Solution to Low and Variable Bioavailability of Poorly Soluble Anti-Inflammatory Drugs [IWEMC-301]
DOI: 10.5281/zenodo.16657426
title: Data for "Evaluating kinship estimation methods for reduced-representation SNP data in non-model species"

description: Seedling and Mother Dataset

This dataset accompanies a kinship inference analysis using SNP data from multiple species (Acacia suaveolens, Acacia terminalis, Hakea sericea, Hakea teretifolia, Banksia aemula, and Banksia serrata), applying criteria adapted from Ramstetter et al. (2017). The files provided include SNP genotype matrices, metadata for each dataset, and kinship inference parameters used to assign relationship degrees based on kinship coefficients.

📁 Contents




Filename
Description




KING_inference_parameters.xlsx
Contains two sheets: (1) Kinship inference thresholds (degree vs. kin range), (2) criteria for identifying true positive relationship calls


sp_to_analyse.tsv
Table listing species and datasets used in the analysis


kin_analysis_*_meta2.xlsx
Metadata for samples in each species-dataset combination. Includes sample IDs, family IDs, maternal relationships, and site/location assignments


Report_*_SNP_mapping_2.csv
OneRow format SNP genotype files from DArT (Diversity Arrays Technology) containing biallelic SNPs for each sample 




Inference Criteria

The kinship degree assignments are based on the kinship coefficient (kin), using thresholds derived from:



Ramstetter, M. D., Dyer, T. D., Lehman, D. M., Curran, J. E., Duggirala, R., Blangero, J., Mezey, J. G., & Williams, A. L. (2017). Benchmarking Relatedness Inference Methods with Genome-Wide Data from Thousands of Relatives. Genetics, 207(1), 75–82. https://doi.org/10.1534/genetics.117.1122


Sheet 1 in KING_inference_parameters.xlsx provides the mapping between kinship coefficient ranges and inferred degree (e.g., 1st-degree, 2nd-degree, etc.).

Use Case

These data have been used for testing and benchmarking kinship inference pipelines using real SNP genotype data. The metadata enables validation of inferred relationships by comparing to known maternal relationships and shared family identifiers.
DOI: 10.5281/zenodo.16657427
title: Data for "Evaluating kinship estimation methods for reduced-representation SNP data in non-model species"

description: Seedling and Mother Dataset

This dataset accompanies a kinship inference analysis using SNP data from multiple species (Acacia suaveolens, Acacia terminalis, Hakea sericea, Hakea teretifolia, Banksia aemula, and Banksia serrata), applying criteria adapted from Ramstetter et al. (2017). The files provided include SNP genotype matrices, metadata for each dataset, and kinship inference parameters used to assign relationship degrees based on kinship coefficients.

📁 Contents




Filename
Description




KING_inference_parameters.xlsx
Contains two sheets: (1) Kinship inference thresholds (degree vs. kin range), (2) criteria for identifying true positive relationship calls


sp_to_analyse.tsv
Table listing species and datasets used in the analysis


kin_analysis_*_meta2.xlsx
Metadata for samples in each species-dataset combination. Includes sample IDs, family IDs, maternal relationships, and site/location assignments


Report_*_SNP_mapping_2.csv
OneRow format SNP genotype files from DArT (Diversity Arrays Technology) containing biallelic SNPs for each sample 




Inference Criteria

The kinship degree assignments are based on the kinship coefficient (kin), using thresholds derived from:



Ramstetter, M. D., Dyer, T. D., Lehman, D. M., Curran, J. E., Duggirala, R., Blangero, J., Mezey, J. G., & Williams, A. L. (2017). Benchmarking Relatedness Inference Methods with Genome-Wide Data from Thousands of Relatives. Genetics, 207(1), 75–82. https://doi.org/10.1534/genetics.117.1122


Sheet 1 in KING_inference_parameters.xlsx provides the mapping between kinship coefficient ranges and inferred degree (e.g., 1st-degree, 2nd-degree, etc.).

Use Case

These data have been used for testing and benchmarking kinship inference pipelines using real SNP genotype data. The metadata enables validation of inferred relationships by comparing to known maternal relationships and shared family identifiers.
DOI: 10.15468/dl.9599ex
title: Occurrence Download

description: A dataset containing 772 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Freshwater Lamprey Survey Data",
 {
 "or" : [
 "Geometry POLYGON((-19.63305 46.44056,10.63305 46.44056,10.63305 58.55944,-19.63305 58.55944,-19.63305 46.44056))",
 "Geometry POLYGON((-5.01442 51.85095,-5.01737 51.81346,-4.97399 51.79284,-4.92418 51.80356,-4.92204 51.83676,-4.95739 51.8539,-4.98845 51.86193,-5.01442 51.85095))"
 ]
 },
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 772 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028708-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13130/rd_unimi/jmksaw/dph168
title: out_DELTA_REF_test_set_clean_avg_NAMES.csv

description: :unav
DOI: 10.6084/m9.figshare.29094701.v1
title: WyFormer generated structures

description: Structures generated by WyFormer, with various post processing. Used in the ICML 2025 paper.
DOI: 10.13130/rd_unimi/jmksaw/hepbcq
title: mono_vanilla_delta_ref_mono_oracle_test_set_clean.tab

description: :unav
DOI: 10.15468/dl.6m4xhj
title: Occurrence Download

description: A dataset containing 7784 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Natural England bat roost visit records from 2013 onwards"
 ]
}

 The dataset includes 7784 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012398-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13130/rd_unimi/jmksaw/viaqsh
title: plot_SB_Targeted_Clustering_delta_self_test_set_clean.png

description: :unav
DOI: 10.15468/dl.8jq8ds
title: Occurrence Download

description: A dataset containing 32180004 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 32180004 records from 3972 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012367-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e8xvy6
title: Occurrence Download

description: A dataset containing 8353 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Gastridium ventricosum (Gouan) Schinz & Thell.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 8353 records from 210 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0298158-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e92t3w
title: Occurrence Download

description: A dataset containing 106096 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Malva moschata L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 106096 records from 557 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0264154-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e96mjf
title: Occurrence Download

description: A dataset containing 87 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Globularia trichosantha Fisch. & C.A.Mey.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 87 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0262015-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e9jst4
title: Occurrence Download

description: A dataset containing 44 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Santolina virens Mill.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 44 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0289444-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sw9hmf
title: Occurrence Download

description: A dataset containing 2381 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Bay of Fundy Species List",
 "Geometry POLYGON((-68.76840 44.09303,-64.23160 44.09303,-64.23160 45.90697,-68.76840 45.90697,-68.76840 44.09303))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 2381 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0078290-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.