cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.vneu4q
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "VerbatimScientificName is one of (Campsoscolia klugii (Vander Linden, 1827), Campsoscolia klugii, Scolia klugii Vander Linden, 1827, Colpa klugii (Vander Linden, 1827), , , )",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Country is Ukraine"
 ]
}

 The dataset includes 10 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082732-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ajngn4
title: Occurrence Download

description: A dataset containing 1281 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Lathrotriccus griseipectus (Lawrence, 1869))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1281 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018179-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8pmtt7
title: Occurrence Download

description: A dataset containing 3582 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "Country is South Africa",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Loxodonta africana (Blumenbach, 1797)"
 ]
}

 The dataset includes 3582 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0021866-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.afd76f
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepanthes ectopa Luer"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006514-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bbbkcd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "VerbatimScientificName is Pyrrhura pacifica",
 "BasisOfRecord is one of (Machine Observation, Human Observation)",
 "Year 2011-2021",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen, Material citation, Material sample)"
 ]
 }
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082767-230530130749713/datasets/export for details.
DOI: 10.15468/dl.bckpwm
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Alyssum hajastanum V.E.Avet."
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018146-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aec265
title: Occurrence Download

description: A dataset containing 62 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Haplopappus anthylloides Meyen & Walp."
 ]
}

 The dataset includes 62 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007915-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8whpuy
title: Occurrence Download

description: A dataset containing 6 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepanthes edentula Luer"
 ]
}

 The dataset includes 6 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0006515-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ee7y7f
title: Occurrence Download

description: A dataset containing 13928 species occurrences available in GBIF matching the query:
{
 "and" : [
 "VerbatimScientificName is Pyrrhura hoffmanni",
 "BasisOfRecord is one of (Machine Observation, Human Observation)",
 "Year 2011-2021",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen, Material citation, Material sample)"
 ]
 }
 }
 ]
}

 The dataset includes 13928 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082733-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.eqvszc
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Argostemma fasciculatum Sridith & K.Larsen"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046740-230224095556074/datasets/export for details.
DOI: 10.15468/dl.eztnbq
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is USA",
 "Geometry POLYGON((-160.50651 21.85822,-159.94595 21.85822,-159.94595 22.33869,-160.50651 22.33869,-160.50651 21.85822))",
 "OccurrenceStatus is Present",
 "Year 2022-2023"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018151-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k2j5w8
title: Occurrence Download

description: A dataset containing 220 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Machine Observation, Human Observation)",
 "Geometry POLYGON((-78.11618 1.21456,-73.05423 -1.72015,-72.53964 11.58538,-75.83756 9.58424,-78.11618 1.21456))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Anoura Gray, 1838"
 ]
}

 The dataset includes 220 records from 42 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031510-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z92fx2
title: Occurrence Download

description: A dataset containing 576 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pappophorum pappiferum (Lam.) Kuntze)",
 "HasCoordinate is true"
 ]
}

 The dataset includes 576 records from 77 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068107-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2jqnh2
title: Occurrence Download

description: A dataset containing 728 species occurrences available in GBIF matching the query:
{
 "and" : [
 "VerbatimScientificName is Pyrrhura hoematotis",
 "BasisOfRecord is one of (Machine Observation, Human Observation)",
 "Year 2011-2021",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen, Specimen, Material citation, Material sample)"
 ]
 }
 }
 ]
}

 The dataset includes 728 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082734-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.66xd56
title: Occurrence Download

description: A dataset containing 17 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Argostemma geesinkii B.Bremer"
 ]
}

 The dataset includes 17 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046746-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.86nytb
title: Occurrence Download

description: A dataset containing 1879 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Odontarrhena obovata C.A.Mey."
 ]
}

 The dataset includes 1879 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018156-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.avcw2r
title: Occurrence Download

description: A dataset containing 197 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Machine Observation, Human Observation)",
 "Geometry POLYGON((-78.21469 0.71618,-74.96534 -0.13565,-72.70832 11.40028,-75.35258 10.45497,-78.21469 0.71618))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Anoura Gray, 1838"
 ]
}

 The dataset includes 197 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031511-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6d28yh
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Argostemma montense Ridl."
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046831-230224095556074/datasets/export for details.
DOI: 10.15468/dl.t4233p
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "VerbatimScientificName is one of (Campsoscolia klugii (Vander Linden, 1827), Campsoscolia klugii, Scolia klugii Vander Linden, 1827, Colpa klugii (Vander Linden, 1827), , , )",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Country is Ukraine"
 ]
}

 The dataset includes 10 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082739-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.y3f74q
title: Occurrence Download

description: A dataset containing 55507 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pyrrhomyias cinnamomeus (Orbigny & Lafresnaye, 1837), Pyrrhomyias cinnamomea (Orbigny & Lafresnaye, 1837))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 55507 records from 124 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018162-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.esa5gj
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lepidosperma gibsonii R.L.Barrett"
 ]
}

 The dataset includes 48 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007921-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qnnem6
title: Occurrence Download

description: A dataset containing 148 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Argostemma parvifolium Benn."
 ]
}

 The dataset includes 148 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046858-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qmqpi0
title: Occurrence Download

description: A dataset containing 7072 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "Country is Sweden",
 "Country is Norway",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "Country is Finland",
 "Country is Estonia",
 "Country is Switzerland",
 "Country is Luxembourg",
 "Country is France",
 "Country is Russian Federation"
 ]
 },
 "Year 2000-2019",
 "TaxonKey is Anastrophyllum hellerianum (Nees ex Lindenb.) R.M.Schust."
 ]
}

 The dataset includes 7072 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034456-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wrfijf
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0089673-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2undsq
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "InstitutionCode is fmnh",
 "InstitutionCode is smns"
 ]
 },
 "TaxonKey is Bujurquina apoparuana Kullander, 1986"
 ]
}

 The dataset includes 2 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0080228-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ri45kc
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025739-180508205500799/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kyxycg
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is (Table 1) Proportion of Toxoplasma gondii seropositive arctic foxes (Alopex lagopus) by age group and geographic area"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000045-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h5tb7s
title: Occurrence Download

description: A dataset containing 97430045 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 97430045 records from 10279 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0080284-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pu8as8
title: Occurrence Download

description: A dataset containing 885595 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is BirdMap Data - GPS tracking of Storks, Cranes and birds of prey, breeding in Northern and Eastern Europe"
 ]
}

 The dataset includes 885595 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0007323-250415084134356/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13992023
title: Harnessing machine learning models for epigenome to transcriptome association studies

description: Understanding how epigenome variation contributes to gene expression in disease and development is a fundamental challenge. Regulatory regions show cell type-specific epigenome activity and differ in their location, size, and distance totheir target genes, complicating discovery and analysis. Recent machine learning models have been proposed to address these problems by learning functions for the prediction of gene expression from epigenomic data. Here, we use the largeIHEC EpiATLAS dataset to benchmark state-of-the-art linear and non-linear approaches. Each approach is optimized for over 28,000 human genes, providing a comprehensive regulatory catalog of gene models. In-depth comparison revealsthat gene characteristics and the epigenomic complexity of the locus influence the difficulty of predicting the epigenome-to-transcriptome association. The model performance is further evaluated using CRISPRi and eQTL validation data.Based on these models, we conduct histone-acetylation association studies in a systematic way to investigate how epigenomic variation impacts gene expression. The model-based analysis revealed genes and regulatory regions linked to B-cell leukemia in patient data with known disease-related functions. Our work provides a foundation for applications that link epigenome variation to gene expression in human cells, by benchmarking methods on a per-gene basis, illustrating their use in a disease context and making trained models available to the community.
DOI: 10.5281/zenodo.13992024
title: Harnessing machine learning models for epigenome to transcriptome association studies

description: Understanding how epigenome variation contributes to gene expression in disease and development is a fundamental challenge. Regulatory regions show cell type-specific epigenome activity and differ in their location, size, and distance totheir target genes, complicating discovery and analysis. Recent machine learning models have been proposed to address these problems by learning functions for the prediction of gene expression from epigenomic data. Here, we use the largeIHEC EpiATLAS dataset to benchmark state-of-the-art linear and non-linear approaches. Each approach is optimized for over 28,000 human genes, providing a comprehensive regulatory catalog of gene models. In-depth comparison revealsthat gene characteristics and the epigenomic complexity of the locus influence the difficulty of predicting the epigenome-to-transcriptome association. The model performance is further evaluated using CRISPRi and eQTL validation data.Based on these models, we conduct histone-acetylation association studies in a systematic way to investigate how epigenomic variation impacts gene expression. The model-based analysis revealed genes and regulatory regions linked to B-cell leukemia in patient data with known disease-related functions. Our work provides a foundation for applications that link epigenome variation to gene expression in human cells, by benchmarking methods on a per-gene basis, illustrating their use in a disease context and making trained models available to the community.
DOI: 10.34740/kaggle/dsv/11970305
title: Global Genomic Neurofibromatosis Neoplasia
DOI: 10.15156/bio/sh1386125.10fu
title: SH1386125.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1386128.10fu
title: SH1386128.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1386131.10fu
title: SH1386131.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.