cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.4tea7x
title: Occurrence Download

description: A dataset listing the 1294 species recorded in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is China",
 "DatasetKey is EOD – eBird Observation Dataset",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "IucnRedListCategory is one of (CR, EN, VU, NT, LC, DD, EX, EW, NE)",
 "Year 2000-2019"
 ]
}

 The dataset's 1294 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072164-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25582/data.2024-01.3007891/2500228
title: Data for EMSL Project 48468 from January 2024
DOI: 10.25582/data.2024-01.3007894/2500229
title: Data for EMSL Project 48468 from January 2024
DOI: 10.25582/data.2024-01.3007895/2500230
title: Data for EMSL Project 48468 from January 2024
DOI: 10.25582/data.2024-01.3007896/2500231
title: Data for EMSL Project 48468 from January 2024
DOI: 10.25582/data.2024-01.3007899/2500232
title: Data for EMSL Project 48468 from January 2024
DOI: 10.25582/data.2024-01.3007901/2500233
title: Data for EMSL Project 48468 from January 2024
DOI: 10.25582/data.2024-01.3007902/2500234
title: Data for EMSL Project 48468 from January 2024
DOI: 10.5281/zenodo.14261827
title: Spiral-eyes: A soft active matter model of in vivo corneal epithelial cell migration - supporting dataset, software and analysis pipeline

description: The mammalian cornea constantly regenerates its outer epithelial layer. Cells lost by abrasion are replaced by division of both corneal epithelial cells and populations of stem cells around the corneal periphery, the limbus. Limbal-derived epithelial cells migrate into the cornea, retaining equal cell loss and replacement rates (the ‘XYZ hypothesis’). This process leads to a striking stable spiral cell motion pattern across the corneal surface, with a central vortex. Here, we show that the emergence of the spiral pattern can be explained by the interplay of the position of the limbus, cell division, extrusion, and collective cell migration along the curved surface of the cornea. Using dissected LacZ mosaic murine corneas, we inferred the flow field on the curved surface by following stripe edges, revealing a tightening spiral. To explain the flow fields, we developed a cell-level, in silico model of the mouse cornea. Corneal epithelial cells were treated as mechanically soft, self-propelled particles with density-dependent proliferation and extrusion rates, and noisy alignment of the direction of migration. Even without any global guidance cues, the model predicted that migration patterns form stripes and spirals closely recapitulating those in the experiment. To understand the origin and properties of this flow field, we complemented the particle-based model with a continuum description of cell flux on the cornea that generalises the XYZ hypothesis of steady-state balance between cell divisions and extrusions. The work, therefore, demonstrates how the physics of swarms on curved surfaces can provide quantitative explanations of biological processes at the tissue scale.

This dataset contains raw data, software, and the analysis pipeline for this publication. Please see 'Readme.txt' within each folder for more details.

stripe_fits: Dissected corneal images and analysis code to infer velocity fields

Figure3_DAPI-CENTROSOME: Stained corneal images and analysis of centrosome locations 

in_vitro: Videos of explant and tissue culture plastic substrate human corneal epithelia and analysis code to compute velocity fields and their correlations

simulation: Source code SAMoS and sample configurations and scripts to generate cornea simulations and in-vitro simulaitons

analysis: Source code SAMoSA, analysed data pickle files, sample visualisation files, and analysis scripts for simulation data

supplementary_videos: videos of simulations and experiments submitted togetether with the manuscript

Cornea_bioarxiv_submitted.pdf: Manuscript preprint
DOI: 10.5281/zenodo.14261828
title: Spiral-eyes: A soft active matter model of in vivo corneal epithelial cell migration - supporting dataset, software and analysis pipeline

description: The mammalian cornea constantly regenerates its outer epithelial layer. Cells lost by abrasion are replaced by division of both corneal epithelial cells and populations of stem cells around the corneal periphery, the limbus. Limbal-derived epithelial cells migrate into the cornea, retaining equal cell loss and replacement rates (the ‘XYZ hypothesis’). This process leads to a striking stable spiral cell motion pattern across the corneal surface, with a central vortex. Here, we show that the emergence of the spiral pattern can be explained by the interplay of the position of the limbus, cell division, extrusion, and collective cell migration along the curved surface of the cornea. Using dissected LacZ mosaic murine corneas, we inferred the flow field on the curved surface by following stripe edges, revealing a tightening spiral. To explain the flow fields, we developed a cell-level, in silico model of the mouse cornea. Corneal epithelial cells were treated as mechanically soft, self-propelled particles with density-dependent proliferation and extrusion rates, and noisy alignment of the direction of migration. Even without any global guidance cues, the model predicted that migration patterns form stripes and spirals closely recapitulating those in the experiment. To understand the origin and properties of this flow field, we complemented the particle-based model with a continuum description of cell flux on the cornea that generalises the XYZ hypothesis of steady-state balance between cell divisions and extrusions. The work, therefore, demonstrates how the physics of swarms on curved surfaces can provide quantitative explanations of biological processes at the tissue scale.

This dataset contains raw data, software, and the analysis pipeline for this publication. Please see 'Readme.txt' within each folder for more details.

stripe_fits: Dissected corneal images and analysis code to infer velocity fields

Figure3_DAPI-CENTROSOME: Stained corneal images and analysis of centrosome locations 

in_vitro: Videos of explant and tissue culture plastic substrate human corneal epithelia and analysis code to compute velocity fields and their correlations

simulation: Source code SAMoS and sample configurations and scripts to generate cornea simulations and in-vitro simulaitons

analysis: Source code SAMoSA, analysed data pickle files, sample visualisation files, and analysis scripts for simulation data

supplementary_videos: videos of simulations and experiments submitted togetether with the manuscript

Cornea_bioarxiv_submitted.pdf: Manuscript preprint
DOI: 10.57931/2500385
title: Navigating Epistemic Uncertainty in the Management of Flash Droughts

description: Abstract: Flash droughts, characterized by their rapid onset, sharply contrast with the typically gradual development of traditional droughts. These events are triggered by a combination of low rainfall and high evaporation rates, driven by elevated temperatures, making them particularly challenging to predict and prepare for. As a relatively new concept, flash drought is not well understood, which introduces significant epistemic uncertainties regarding their nature and detection methods. This under-detection hinders planners' ability to effectively manage these events. Despite these uncertainties, flash droughts can have significant impacts, raising the question: how can decision-makers prepare for such events given the current knowledge gaps? To address this, we propose a methodological framework aimed at enhancing flash drought preparedness by guiding the selection of appropriate indicators based on their detection capabilities and the decision-makers' level of risk aversion. Our approach involves evaluating six different flash drought indicators and analyzing the level of agreement among them. Additionally, we consider the decision-makers' risk aversion, distinguishing between those who require consensus across all methods (risk-takers) and those who act based on a single method's indication (risk-averse). The insights gained from this study offer a pathway towards more informed decision-making processes regarding flash droughts, potentially mitigating their adverse effects through better preparedness and response strategies.
DOI: 10.57931/2500386
title: Detecting flash drought events to inform adaptive water management

description: Abstract: Flash droughts are characterized by a rapid onset of drought conditions, a common feature among various indicators of these events. The lack of a standardized definition and indicator makes flash droughts particularly challenging to predict and manage. We test six state-of-the-art flash drought indicators using 41 years of daily data across all Hydrological Unit Code 4 (HUC4) regions in the contiguous United States. Our results show substantial disagreements among indicators, suggesting that the detection of a flash drought event strongly depends on the choice of indicator. From the perspective of informing management and operations, an open challenge remains: which flash drought indicator should be used to trigger operational adaptations? To this end, we propose a methodological framework that informs adaptive actions by regionally assessing the level of agreement between different indicators. The regional differences in hydroclimatic conditions are expected to be reflected in the level of agreement between indicators. To better inform adaptive actions, the framework will also consider the impacted sectoral water uses and their varying response times. The insights gained from this study improve the understanding of how these different flash drought indicators capture the different aspects of regional differences and impacted sectors. Furthermore, this information can support more targeted adaptive actions to mitigate adverse impacts through improved preparedness and response strategies.
DOI: 10.15468/dl.g4m4v2
title: Occurrence Download

description: A dataset containing 5471 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phasianus colchicus Linnaeus, 1758",
 "BasisOfRecord is one of (Human Observation, Living Specimen, Machine Observation, Observation, Occurrence evidence)",
 "Year is 2023",
 "Country is United States of America",
 "StateProvince is Montana"
 ]
}

 The dataset includes 5471 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072169-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.f9zk9h
title: Occurrence Download

description: A dataset containing 36515 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Taxon occurrence data for the FungalRoot database"
 ]
}

 The dataset includes 36515 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072170-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.71747/uow-r3gk326m.28216865
title: OCTOPUS Database v.2.3: The CRN Denudation Global collection [2024]

description: Database of published cosmogenic Be-10 and Al-26 concentrations from modern river sediment and basin-averaged denudation rates inferred from these data. Ancillary spatial data includes: sample site location (point), basin outline (polygon), digital elevation model (raster), D8 flow direction and flow accumulation grids (raster), topographic gradient (raster), atmospheric pressure (raster), and cosmogenic nuclide production scaling factor and topographic shielding grids (raster). The vector spatial data uses the WGS84/Pseudo-Mercator (EPSG: 3857) projected coordinate reference system. The raster data uses the WGS86/UTM projected coordinate reference system, UTM zones depending on the extent and location of each data package. Sample metadata is comprehensive and includes all necessary information and input files for the recalculation of denudation rates using the CAIRN model (https://github.com/LSDtopotools/LSDTopoTools_CRNBasinwide). All denudation rates were recalculated and harmonised using CAIRN. The extent of the data is global, excluding Australia.
DOI: 10.71747/uow-r3gk326m.28216865.v1
title: OCTOPUS Database v.2.3: The CRN Denudation Global collection [2024]

description: Database of published cosmogenic Be-10 and Al-26 concentrations from modern river sediment and basin-averaged denudation rates inferred from these data. Ancillary spatial data includes: sample site location (point), basin outline (polygon), digital elevation model (raster), D8 flow direction and flow accumulation grids (raster), topographic gradient (raster), atmospheric pressure (raster), and cosmogenic nuclide production scaling factor and topographic shielding grids (raster). The vector spatial data uses the WGS84/Pseudo-Mercator (EPSG: 3857) projected coordinate reference system. The raster data uses the WGS86/UTM projected coordinate reference system, UTM zones depending on the extent and location of each data package. Sample metadata is comprehensive and includes all necessary information and input files for the recalculation of denudation rates using the CAIRN model (https://github.com/LSDtopotools/LSDTopoTools_CRNBasinwide). All denudation rates were recalculated and harmonised using CAIRN. The extent of the data is global, excluding Australia.
DOI: 10.5281/zenodo.14664807
title: Hackerspace Mail-2010-2019: A Temporal Network Dataset of Hackerspace Email Communications

description: This dataset captures email communications within a North American hackerspace community over a decade (2010-2019), accompanying a paper submitted to ICWSM 2025. It contains temporal network data derived from over 30,000 email interactions, processed to preserve both communication patterns and participant privacy. The dataset enables research into community formation, digital communication patterns, and volunteer organization sustainability.

This dataset is particularly valuable for:- Studying long-term community development through digital communications- Analyzing leadership emergence in volunteer communities- Examining temporal patterns in online-offline community interactions- Testing temporal network analysis methodologies


Dataset Statistics

- 942 nodes (unique users)

- 14,810 edges (interactions)

- Time period: 2010-2019

- Original format: Mailing list communications

- Processed format: Temporal network data (CSV)

 

Files

This dataset contains two CSV files:



nodes.csv (942 records)

Contains information about individual users:



`Id`: Unique user identifier

`total_messages`: Total number of messages sent by this account

`cohort`: Membership category (founder/early_adopter/regular_member)

`presence`: Time interval of user activity [first_message_date, last_message_date]

`size`: Log-scaled node size based on monthly message volume


Cohort definitions:



`founder`: Joined Jan 1 - June 30, 2010

`early_adopter`: Joined July 1 2010 - Aug 31, 2011

`regular_member`: Joined after Aug 31, 2011


temporal_edges.csv (14,810 records)

Contains interaction data between users:



`Id`: Unique edge identifier

`Source`: Message sender identifier

`Target`: Primary recipient identifier

`Weight_compressed`: Log-scale weight (ceiling: 50 interactions/month/year)

`Weight_original`: Log-scale weight (ceiling: 5 interactions/month/year)

`Weight_raw`: Raw number of interactions per month/year

`interval`: Monthly time window (e.g., <[2019-12-01, 2019-12-31]>)

`year`: Active year for this edge


Usage Notes- All data has been anonymized to protect privacy- Timestamps preserved at monthly granularity- Multiple weight calculations provided to support different analysis approaches- Temporal intervals formatted for direct import into Gephi

For detailed methodology and context, please see the accompanying ICWSM 2025 paper [paper DOI to be added upon publication].
DOI: 10.5281/zenodo.14664808
title: Hackerspace Mail-2010-2019: A Temporal Network Dataset of Hackerspace Email Communications

description: This dataset captures email communications within a North American hackerspace community over a decade (2010-2019), accompanying a paper submitted to ICWSM 2025. It contains temporal network data derived from over 30,000 email interactions, processed to preserve both communication patterns and participant privacy. The dataset enables research into community formation, digital communication patterns, and volunteer organization sustainability.

This dataset is particularly valuable for:- Studying long-term community development through digital communications- Analyzing leadership emergence in volunteer communities- Examining temporal patterns in online-offline community interactions- Testing temporal network analysis methodologies


Dataset Statistics

- 942 nodes (unique users)

- 14,810 edges (interactions)

- Time period: 2010-2019

- Original format: Mailing list communications

- Processed format: Temporal network data (CSV)

 

Files

This dataset contains two CSV files:



nodes.csv (942 records)

Contains information about individual users:



`Id`: Unique user identifier

`total_messages`: Total number of messages sent by this account

`cohort`: Membership category (founder/early_adopter/regular_member)

`presence`: Time interval of user activity [first_message_date, last_message_date]

`size`: Log-scaled node size based on monthly message volume


Cohort definitions:



`founder`: Joined Jan 1 - June 30, 2010

`early_adopter`: Joined July 1 2010 - Aug 31, 2011

`regular_member`: Joined after Aug 31, 2011


temporal_edges.csv (14,810 records)

Contains interaction data between users:



`Id`: Unique edge identifier

`Source`: Message sender identifier

`Target`: Primary recipient identifier

`Weight_compressed`: Log-scale weight (ceiling: 50 interactions/month/year)

`Weight_original`: Log-scale weight (ceiling: 5 interactions/month/year)

`Weight_raw`: Raw number of interactions per month/year

`interval`: Monthly time window (e.g., <[2019-12-01, 2019-12-31]>)

`year`: Active year for this edge


Usage Notes- All data has been anonymized to protect privacy- Timestamps preserved at monthly granularity- Multiple weight calculations provided to support different analysis approaches- Temporal intervals formatted for direct import into Gephi

For detailed methodology and context, please see the accompanying ICWSM 2025 paper [paper DOI to be added upon publication].
DOI: 10.15468/dl.qv75yb
title: Occurrence Download

description: A dataset listing the 14527 species recorded in GBIF matching the query:
{
 "DatasetKey" : [
 "is Taxon occurrence data for the FungalRoot database"
 ]
}

 The dataset's 14527 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072171-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6te23s
title: Occurrence Download

description: A dataset containing 5471 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Phasianus colchicus Linnaeus, 1758",
 "BasisOfRecord is one of (Human Observation, Living Specimen, Machine Observation, Observation, Occurrence evidence)",
 "Year is 2023",
 "Country is United States of America",
 "StateProvince is Montana"
 ]
}

 The dataset includes 5471 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072172-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.njakry
title: Occurrence Download

description: A dataset containing 68946 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Trichaptum agglutinatum Corner, Trichaptum vinaceobrunneum (Corner) T.Hatt., Trichaptum podocarpi Y.C.Dai, Trichaptum strigosum Corner, Trichaptum resacarium Vlasák & J.Vlasák, Trichaptum perrottetii (Lév.) Ryvarden, Trichaptum perpusillum (Corner) T.Hatt., Trichaptum byssogenum (Jungh.) Ryvarden, Hirschioporus anomalus (Lloyd) Teng, Trichaptum variabilis Ryvarden & Iturr., Trichaptum perenne Y.C.Dai & H.S.Yuan, Trichaptum agricola Vlasák & J.Vlasák, Trichaptum fumosoavellaneum (Romell) Rajchenb. & Bianchin., Trichaptum suberosum Corner, Trichaptum jackiae Corner, Trichaptum subchartaceum (Murrill) Ryvarden, Nigrofomes nigrivineus (Corner) T.Hatt. & Sotome, Trichaptum molestum (Corner) T.Hatt. & Sotome, Trichaptum griseofuscum (Mont.) Ryvarden & Iturr., Trichaptum montanum T.Hatt., Hirschioporus fuscoviolaceus (Ehrenb.) Donk, Trichaptum fuscoviolaceum (Ehrenb.) Ryvarden, Hirschioporus abietinus (Pers. ex J.F.Gmel.) Donk, Trichaptum abietinum (Pers. ex J.F.Gmel.) Ryvarden)"
 ]
}

 The dataset includes 68946 records from 423 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072173-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ug23vs
title: Occurrence Download

description: A dataset containing 27348 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Living Specimen)",
 "CoordinateUncertaintyInMeters 0.0-1000000.0",
 "TaxonKey is Erica arborea L.",
 "Year 1990-2025"
 ]
}

 The dataset includes 27348 records from 179 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0072174-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11536699
title: Data for Cumulative hydrological impacts of forest disturbance follow the Law of Diminishing Returns

description: This dataset includes cumulative equivalent clear-cut area (CECA) and hydrological sensitivities in 42 study watersheds.
DOI: 10.5281/zenodo.14665441
title: Data for Cumulative hydrological impacts of forest disturbance follow the Law of Diminishing Returns

description: This dataset includes cumulative equivalent clear-cut area (CECA) and hydrological sensitivities in 42 study watersheds.
DOI: 10.71747/uow-r3gk326m.28216919
title: OCTOPUS Database v.2.3: The CRN Denudation Australian collection [2024]

description: Database of published cosmogenic Be-10 and Al-26 concentrations from modern river sediment and basin-averaged denudation rates inferred from these data. Ancillary spatial data includes: sample site location (point), basin outline (polygon), digital elevation model (raster), D8 flow direction and flow accumulation grids (raster), topographic gradient (raster), atmospheric pressure (raster), and cosmogenic nuclide production scaling factor and topographic shielding grids (raster). The vector spatial data uses the WGS84/Pseudo-Mercator (EPSG: 3857) projected coordinate reference system. The raster data uses the WGS86/UTM projected coordinate reference system, UTM zones depending on the extent and location of each data package. Sample metadata is comprehensive and includes all necessary information and input files for the recalculation of denudation rates using the CAIRN model (https://github.com/LSDtopotools/LSDTopoTools_CRNBasinwide). All denudation rates were recalculated and harmonised using CAIRN. The extent of the data covers Australia.