cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.jv4c3u
title: Occurrence Download

description: A dataset containing 115 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Thailand",
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Acanthosaura phuketensis Pauwels, Sumontha, Kunya, Nitikul, Samphanthamit, Wood & Grismer, 2015",
 "Year 2000-2024"
 ]
}

 The dataset includes 115 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041013-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gvep83
title: Occurrence Download

description: A dataset containing 919 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Rhipidoglossum Schltr."
 ]
}

 The dataset includes 919 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041014-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4gm4r5
title: Occurrence Download

description: A dataset containing 568 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Syringa reticulata subsp. amurensis (Rupr.) P.S.Green & M.C.Chang)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 568 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041015-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.35dzmd
title: Occurrence Download

description: A dataset containing 469 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Syringa reticulata subsp. pekinensis (Rupr.) P.S.Green & M.C.Chang)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 469 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041016-240626123714530/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.26174143.v2
title: <b>Pan-cancer signature of Treg cell resistance through an integrative analysis of single-cell and bulk RNA sequencing data</b>

description: Source codes and data used to generate the results of this study.
DOI: 10.6084/m9.figshare.26174143
title: <b>Revealing a pan-cancer signature of Treg cell immunotherapy resistance through an integrative analysis of single-cell and bulk RNA sequencing data</b>

description: 用于生成本研究结果的源代码和数据。
DOI: 10.6084/m9.figshare.26174143.v4
title: <b>Revealing a pan-cancer signature of Treg cell immunotherapy resistance through an integrative analysis of single-cell and bulk RNA sequencing data</b>

description: 用于生成本研究结果的源代码和数据。
DOI: 10.6084/m9.figshare.26174143.v3
title: <b>通过对单细胞和批量 RNA 测序数据的综合分析，揭示 Treg 细胞免疫疗法耐药性的泛癌特征</b>

description: 用于生成本研究结果的源代码和数据。
DOI: 10.15468/dl.8s33es
title: Occurrence Download

description: A dataset containing 42 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Syringa reticulata subsp. reticulata)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 42 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041018-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13120957
title: VOC_OHP_Canopee2014_2m

description: Volatile Organic Compounds concentrations in unit ppb measured with a Proton Transfer Reaction Mass Spectrometer (quadrupole MS, Ionicon Analytik, Austria) at the site Observatoire de Haute Provence, a Mediterranean Forest dominated by Downy Oak trees. Data were collected at 2 m height (inside the canopy), background subtracted. Time resolution is 5 min. Time is local (CEST, UTC+2h). Missing values are due to switching conditions between different measurement heights. 

See the manuscript Zannoni et al., 2016 for details about the identification of the chemical compounds from the masses analysis.
DOI: 10.5281/zenodo.13120958
title: VOC_OHP_Canopee2014_2m

description: Volatile Organic Compounds concentrations in unit ppb measured with a Proton Transfer Reaction Mass Spectrometer (quadrupole MS, Ionicon Analytik, Austria) at the site Observatoire de Haute Provence, a Mediterranean Forest dominated by Downy Oak trees. Data were collected at 2 m height (inside the canopy), background subtracted. Time resolution is 5 min. Time is local (CEST, UTC+2h). Missing values are due to switching conditions between different measurement heights. 

See the manuscript Zannoni et al., 2016 for details about the identification of the chemical compounds from the masses analysis.
DOI: 10.15468/dl.jv5dvn
title: Occurrence Download

description: A dataset containing 112 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Loesenera talbotii Baker f."
 ]
}

 The dataset includes 112 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041019-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e5m8ht
title: Occurrence Download

description: A dataset containing 931 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-20.63168 -39.64971,57.28461 -39.64971,57.28461 20.2859,-20.63168 20.2859,-20.63168 -39.64971))",
 "HasCoordinate is true",
 "TaxonKey is Rhipidoglossum Schltr."
 ]
}

 The dataset includes 931 records from 35 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041020-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mdmm4f
title: Occurrence Download

description: A dataset containing 9 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Syringa tomentella subsp. sweginzowii (Koehne & Lingelsh.) Jin Y.Chen & D.Y.Hong)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 9 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041021-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.z5mzzq
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Leonardoxa africana subsp. letouzeyi McKey"
 ]
}

 The dataset includes 16 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041022-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8kd45p
title: Occurrence Download

description: A dataset containing 138 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Syringa villosa subsp. wolfii (C.K.Schneid.) Jin Y.Chen & D.Y.Hong)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 138 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041023-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.u3jm7g
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Puntigrus tetrazona (Bleeker, 1855))",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Specimen)"
 ]
 }
 }
 ]
}

 The dataset includes 18 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041024-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dxmpee
title: Occurrence Download

description: A dataset containing 159 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Microberlinia bisulcata A.Chev."
 ]
}

 The dataset includes 159 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041025-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2w4yfv
title: Occurrence Download

description: A dataset containing 144435 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Malva moschata L."
 ]
}

 The dataset includes 144435 records from 1638 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041017-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k4x8jv
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Luticola kotschyi (Grunow) D.G.Mann",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((15.4784 -23.4046,15.4933 -24.0715,20.509 -24.0715,20.509 -24.0455,20.0952 -23.5072,19.9968 -23.017,19.7843 -22.5405,19.1988 -21.8785,18.5972 -21.5447,17.8859 -21.3993,17.1626 -21.4805,16.5332 -21.7596,16.1257 -22.0882,15.8234 -22.4662,15.606 -22.8993,15.4784 -23.4046))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060373-250525065834625/datasets/export for details.
DOI: 10.15468/dl.7p8bbn
title: Occurrence Download

description: A dataset containing 10439 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material sample)"
 ]
 }
 },
 "TaxonKey is Caprimulgus tristigma Rüppell, 1840",
 "Continent is one of (Africa)",
 "Year is greater than or equal to 1900"
 ]
}

 The dataset includes 10439 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060374-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xkt9cd
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Luticola kotschyi (Grunow) D.G.Mann",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((25.5395 -28.5786,20.509 -28.5786,20.509 -32.9007,25.5395 -32.9007,25.5395 -28.5786))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060375-250525065834625/datasets/export for details.
DOI: 10.15468/dl.dafkhx
title: Occurrence Download

description: A dataset containing 38 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-137.88835 -8.88638,38.88835 -8.88638,38.88835 61.88638,-137.88835 61.88638,-137.88835 -8.88638))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Octopus maya G.L.Voss & Solís, 1966"
 ]
}

 The dataset includes 38 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060377-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15706915
title: Dataset for "Ginger-Induced Modulation of Gut Microbiota

description: A dataset supporting the manuscript submitted to Gut Microbes
DOI: 10.5281/zenodo.15706914
title: Dataset for "Ginger-Induced Modulation of Gut Microbiota

description: A dataset supporting the manuscript submitted to Gut Microbes
DOI: 10.15468/dl.nvqyza
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Luticola kotschyi (Grunow) D.G.Mann",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((20.7576 -24.3688,20.529 -24.0715,20.509 -24.0715,20.509 -28.5786,25.5395 -28.5786,25.5395 -24.0715,25.1306 -24.0715,24.9333 -24.4571,23.8962 -24.2467,22.8065 -24.295,22.3719 -24.7207,22.2323 -25.547,22.0387 -25.7188,21.7833 -25.7784,21.5388 -25.7113,21.3553 -25.5415,20.7576 -24.3688))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060378-250525065834625/datasets/export for details.
DOI: 10.15468/dl.y8ue5y
title: Occurrence Download

description: A dataset containing 2035 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material sample)"
 ]
 }
 },
 "TaxonKey is Caprimulgus vexillarius (Gould, 1838)",
 "Continent is one of (Africa)",
 "Year is greater than or equal to 1900"
 ]
}

 The dataset includes 2035 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060379-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15699073
title: Data for paper 'Shape matters: Inferring the motility of confluent cells from static images' (Soft Matter, 2025)

description: This dataset accompanies the research article “Shape Matters: Inferring the motility of confluent cells from static images” (Soft Matter, 2025). The data was generated using simulations based on the Cellular Potts model, a computational framework widely used to study collective cell behavior and tissue morphogenesis.

Feature data

The simulations model a confluent layer of cells with subpopulations that are characterized by a different motility. Simulations were run for 6 different conditions (see labeling in the table below) and with different number of high-motility (Na) and low-motility cells. 




 
High-motility cells
Low-motility cells


A
kappa = 1500
kappa = 0


B
kappa = 1500
kappa = 150


C
kappa = 750
kappa = 150


D
kappa = 500
kappa = 150


E
kappa = 375
kappa = 150


F
kappa = 300
kappa = 150




 

From each individual cell in the simulations, we extracted an extensive list of features (see Table 1 in the manuscript for the definitions). The complete dataset of extracted features is available in the folders of this repository.

File Naming Convention:Files are named using the format:

            A/<x>M/ML_data_<x>M_<y>.pkl

Where:



<x> indicates the number of high-motility cells (Na)

<y> denotes the index of the independent simulation replicate


 

Machine Learning results 

The features are used in a machine-learning model. This model uses the features to generate a classification report. The machine-learning model has used either the complete data set (All) or a subset of the features (e.g. Local_and_Shape). The results of these model calculations are stored in the ML folder.

File Naming Convention: 

Files are named using the format:

            ML/A/<subset>/on_<sim_info>_trained

Where: 



<subset> indicates which subset of the data has been used 

<sim_info> indicates what training set has been used (e.g. itself = same training/testing, 1 = trained on simulations with 1 high-motility cell)


For each condition, the 20 independent classification report are provided.
DOI: 10.5281/zenodo.15699072
title: Data for paper 'Shape matters: Inferring the motility of confluent cells from static images' (Soft Matter, 2025)

description: This dataset accompanies the research article “Shape Matters: Inferring the motility of confluent cells from static images” (Soft Matter, 2025). The data was generated using simulations based on the Cellular Potts model, a computational framework widely used to study collective cell behavior and tissue morphogenesis.

Feature data

The simulations model a confluent layer of cells with subpopulations that are characterized by a different motility. Simulations were run for 6 different conditions (see labeling in the table below) and with different number of high-motility (Na) and low-motility cells. 




 
High-motility cells
Low-motility cells


A
kappa = 1500
kappa = 0


B
kappa = 1500
kappa = 150


C
kappa = 750
kappa = 150


D
kappa = 500
kappa = 150


E
kappa = 375
kappa = 150


F
kappa = 300
kappa = 150




 

From each individual cell in the simulations, we extracted an extensive list of features (see Table 1 in the manuscript for the definitions). The complete dataset of extracted features is available in the folders of this repository.

File Naming Convention:Files are named using the format:

            A/<x>M/ML_data_<x>M_<y>.pkl

Where:



<x> indicates the number of high-motility cells (Na)

<y> denotes the index of the independent simulation replicate


 

Machine Learning results 

The features are used in a machine-learning model. This model uses the features to generate a classification report. The machine-learning model has used either the complete data set (All) or a subset of the features (e.g. Local_and_Shape). The results of these model calculations are stored in the ML folder.

File Naming Convention: 

Files are named using the format:

            ML/A/<subset>/on_<sim_info>_trained

Where: 



<subset> indicates which subset of the data has been used 

<sim_info> indicates what training set has been used (e.g. itself = same training/testing, 1 = trained on simulations with 1 high-motility cell)


For each condition, the 20 independent classification report are provided.
DOI: 10.15468/dl.3ys643
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Luticola kotschyi (Grunow) D.G.Mann",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((20.529 -24.0715,20.509 -24.0455,20.509 -24.0715,20.529 -24.0715))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060380-250525065834625/datasets/export for details.
DOI: 10.15468/dl.pcydp6
title: Occurrence Download

description: A dataset containing 8972 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Material sample)"
 ]
 }
 },
 "TaxonKey is Carduelis carduelis (Linnaeus, 1758)",
 "Continent is one of (Africa)",
 "Year is greater than or equal to 1900"
 ]
}

 The dataset includes 8972 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060382-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nbe3yb
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Luticola kotschyi (Grunow) D.G.Mann",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((25.5395 -23.2724,25.1306 -24.0715,25.5395 -24.0715,25.5395 -23.2724))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060383-250525065834625/datasets/export for details.
DOI: 10.6073/pasta/aa49aa972b42cae2d6017aa430914f3f
title: Interagency Ecological Program Zooplankton Study

description: The Zooplankton Study was implemented in 1972 to assess food resources available to fish in the upper San Francisco Estuary (SFE). Mandated by the State Water Resources Control Board's Water Right Decision D-1641, the study is conducted jointly by the California Department of Fish and Wildlife and the California Department of Water Resources under the guidance and management of the Interagency Ecological Program. For over five decades, this study has monitored the zooplankton community in the region, tracking abundance trends and distributional patterns, detecting and monitoring introduced species, and documenting changes in community composition. The Zooplankton Study uses three gear types to sample macro-, meso-, and micro-zooplankton across the upper SFE on a monthly basis.
DOI: 10.15468/dl.hb8znx
title: Occurrence Download

description: A dataset containing 262 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Elevation 1306.0-9999.0m",
 "Geometry POLYGON((-122.95324 37.06746,-121.44156 36.86587,-120.60718 38.51715,-119.7818 40.82667,-119.81463 43.25935,-119.80548 44.91379,-119.94809 46.97774,-120.62279 49.06255,-121.84892 50.69978,-123.22176 51.92061,-123.49514 52.67754,-125.44428 54.10254,-126.71567 55.51877,-129.24035 57.45942,-132.58661 60.47293,-137.25296 62.50066,-143.52158 64.31426,-147.63854 61.60916,-144.24359 59.43752,-140.61764 59.02798,-136.75289 57.41291,-127.62122 49.32601,-126.81025 45.68788,-126.28365 44.1137,-124.91959 41.22771,-122.95324 37.06746))",
 "OccurrenceStatus is Present",
 "TaxonKey is Neuroptera"
 ]
}

 The dataset includes 262 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0060384-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.