cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10045059
title: Data from "Measurement of the superfluid fraction of a supersolid by Josephson effect'

description: Here we store the data shown in the main text and methods of the manuscript "Measurement of the superfluid fraction of a supersolid by Josephson effect". The data are organized in .dat files with the following scheme: 

X axis    Y axis    Y axis error (if available)     X axis error (if available)

The name of the files refer to the figure number in the paper. If more datasets are plotted in the same figure, the name of the file contains additional information. For example, the file 'FigED5b_Z.dat' contains the data in Extended Data Fig. 5 for the imbalance Z.
DOI: 10.15468/dl.bm8cn8
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "TaxonKey is Andrenidae"
 ]
}

 The dataset includes 48 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0056435-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6bk294
title: Occurrence Download

description: A dataset containing 633 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Avicennia officinalis L."
 ]
}

 The dataset includes 633 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008325-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ta9e5w
title: Occurrence Download

description: A dataset containing 34 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Human Observation, Specimen)",
 "Geometry POLYGON((-98.5 18.83,-97.33 18.83,-97.33 20.67,-98.5 20.67,-98.5 18.83))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ocotea klotzschiana (Nees) Hemsl."
 ]
}

 The dataset includes 34 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0198456-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10554851
title: Divergent evolution of sleep functions - Joyce et al 2024 Dataset - Part 1 of 4

description: This is the full experimental dataset associated to "Divergent evolution of sleep functions" by Joyce et al 2024, Nature Communications. See https://lab.gilest.ro/papers/divergent-evolution-of-sleep-functions/ for more information.

The dataset contains 86 zip files for a total of about 170GB. Once uncompressed, they will explode 622 ethoscope db files for a total of 330Gb, covering behavioural analysis of more than 11.000 animals. These are the RAW data as collected from the ethoscopes. A separate zip archive with all the R/Python scripts and the metadata is also provided.  This also contains confocal images for BRP analysis.



Part 1 of 4: 10.5281/zenodo.10554851 (this page) 

Part 2 of 4: 10.5281/zenodo.10557238

Part 3 of 4: 10.5281/zenodo.10557310

Part 4 of 4: 10.5281/zenodo.10966461
DOI: 10.15468/dl.7gb32n
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Circandra serrata (L.) N.E.Br."
 ]
}

 The dataset includes 5 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0138008-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pantfq
title: Occurrence Download

description: A dataset containing 140037 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vulpes vulpes (Linnaeus, 1758)"
 ]
}

 The dataset includes 140037 records from 413 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004453-150831095807960/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10984353
title: Incidental findings from panoramic radiographs of children and adolescent patients

description: Dataset for the study
DOI: 10.15468/dl.736dh5
title: Occurrence Download

description: A dataset containing 40 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is one of (Grantessa intusarticulata (Carter, 1886), Hypograntia intusarticulata Carter, 1886, Hypograntia medioarticulata Carter, 1886)"
 ]
}

 The dataset includes 40 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0198459-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10554850
title: Divergent evolution of sleep functions - Joyce et al 2024 Dataset - Part 1 of 4

description: This is the full experimental dataset associated to "Divergent evolution of sleep functions" by Joyce et al 2024, Nature Communications. See https://lab.gilest.ro/papers/divergent-evolution-of-sleep-functions/ for more information.

The dataset contains 86 zip files for a total of about 170GB. Once uncompressed, they will explode 622 ethoscope db files for a total of 330Gb, covering behavioural analysis of more than 11.000 animals. These are the RAW data as collected from the ethoscopes. A separate zip archive with all the R/Python scripts and the metadata is also provided.  This also contains confocal images for BRP analysis.



Part 1 of 4: 10.5281/zenodo.10554851 (this page) 

Part 2 of 4: 10.5281/zenodo.10557238

Part 3 of 4: 10.5281/zenodo.10557310

Part 4 of 4: 10.5281/zenodo.10966461
DOI: 10.15468/dl.3xea6t
title: Occurrence Download

description: A dataset containing 849 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anolis ortonii Cope, 1868"
 ]
}

 The dataset includes 849 records from 43 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013643-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wmgiuo
title: Occurrence Download

description: A dataset containing 126 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Habenaria parviflora Lindl.",
 "DatasetKey is SP - Herbário do Estado \"Maria Eneyda P. Kaufmann Fidalgo\" - Coleção de Fanerógamas"
 ]
}

 The dataset includes 126 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004453-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10219181
title: Metabolomics Peak Tables of the publication "Screening of leaf extraction and storage conditions for eco-metabolomics studies"

description: This dataset is a metabolomics study of maize extracts. The dataset consists of peak tables (.csv files) and MS/MS fragment patterns (.mgf files) both exported from MetaboScape. Additionally the results of a Principal Component Analysis are provided for the LLE optimisation part of the dataset.

All further details are available in the publication in Plant Direct: https://doi.org/10.1002/pld3.578
DOI: 10.15468/dl.cmesjy
title: Occurrence Download

description: A dataset containing 434 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Circaeaster agrestis Maxim."
 ]
}

 The dataset includes 434 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0138007-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10984354
title: Incidental findings from panoramic radiographs of children and adolescent patients

description: Dataset for the study
DOI: 10.15468/dl.jhtwnx
title: Occurrence Download

description: A dataset containing 23035 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((2.32206 41.47772,2.36635 41.48981,2.36704 41.50575,2.36567 41.53017,2.34884 41.54919,2.30558 41.5443,2.27537 41.53274,2.27468 41.51012,2.29288 41.48286,2.32206 41.47772))",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 23035 records from 54 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035627-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10900171
title: Warming drives phenological changes in coastal zooplankton

description: This repository contains zooplankton observations and model data used in the article Forsblom, Stoffers, Lindén, Lehtiniemi and Engstöm-Öst (2024) Warming drives phenological changes in coastal zooplankton. Marine Biology (in press).
DOI: 10.15468/dl.qi6ohc
title: Occurrence Download

description: A dataset containing 16 species occurrences available in GBIF matching the query:
{
 "or" : [
 "ScientificName is Narcissus × alentejanus Fern.Casas",
 "ScientificName is Narcissus × alentejanus",
 "ScientificName is Narcissus x alentejanus",
 "ScientificName is Narcissus x alentejanus Fern.Casas",
 "ScientificName is Narcissus xalentejanus Fern.Casas",
 "ScientificName is Narcissus alentejanus Fern.Casas"
 ]
}

 The dataset includes 16 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004453-160803222355964/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fu3jbk
title: Occurrence Download

description: A dataset containing 438073 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Bostrychia hagedash (Latham, 1790)"
 ]
}

 The dataset includes 438073 records from 122 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0138024-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tompjx
title: Occurrence Download

description: A dataset containing 74 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Mertensia fusiformis Greene",
 "HasCoordinate is TRUE"
 ]
}

 The dataset includes 74 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035127-191105090559680/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10636191
title: Model Datafiles for Observed seasonal changes in Martian hydrogen chloride consistent with heterogeneous chemistry on atmospheric dust and ice

description: Datafiles produced by the 1-D photochemistry model used to create the publication "Observed seasonal changes in Martian hydrogen chloride consistent with heterogeneous chemistry on atmospheric dust and ice" - Taysum et al. 2024.

 

matching_orbits_v2.txt : Lists the orbital parameters and water vapour / aerosol file names corresponding to each of the 77 ACS MIR HCl observations that we study.

 

MCD_GlobaMaps.zip : .nc files containing model output where the model is ran at Longitude 0 degrees, across Ls 0 --> 360 in intervals of 30 degrees, and latitudes 60 S to 60 N in intervals of 15 degrees.



LowTau : model runs with the chlorine heterogeneous chemistry scheme active.



MY34/ : Runs driven with MY34 climatology from the MCDv6.1

StandardClim/ : Runs driven with Standard Climatology from the MCDv6.



No_Chlorine : model runs with no chlorine tracers in the model chemistry.



MY34/ : Runs driven with MY34 climatology from the MCDv6.1

StandardClim/ : Runs driven with Standard Climatology from the MCDv6.1

 




ACS_Comparisons.zip : .nc files containing the model output for specific ACS MIR HCl observations in Mars Year 34.



LowTau : model runs with the chlorine heterogeneous chemistry scheme active.



MY34/ : Runs driven with MY34 climatology from the MCDv6.1

StandardClim/ : Runs driven with Standard Climatology from the MCDv6.1

TGO/ : Runs driven with MY34 climatology, and TGO measured water ice, dust, and H2O vapor profiles, driven at the position of the ACS-TIRVIM aerosol retrievals corresponding to the approximately colocated ACS MIR HCl observation



No_Chlorine : model runs with no chlorine tracers in the model chemistry.



MY34/ : Runs driven with MY34 climatology from the MCDv6.1

StandardClim/ : Runs driven with Standard Climatology from the MCDv6.1

TGO/ : Runs driven with MY34 climatology, driven at the position of the ACS-TIRVIM aerosol retrievals corresponding to the approximately colocated ACS MIR HCl observation
DOI: 10.15468/dl.xxu3in
title: Occurrence Download

description: A dataset containing 80 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Lahnufer in Villmar"
 ]
}

 The dataset includes 80 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004453-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b79ppq
title: Occurrence Download

description: A dataset containing 34173 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Bursera Jacq. ex L.",
 "Year 1946-2024"
 ]
}

 The dataset includes 34173 records from 180 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0198457-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6ypye5
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Quercus oleoides subsp. sagraeana (Nutt.) Borhidi"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025526-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sc3gpb
title: Occurrence Download

description: A dataset containing 74 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Human Observation, Specimen)",
 "Geometry POLYGON((-98.5 18.83,-97.33 18.83,-97.33 20.67,-98.5 20.67,-98.5 18.83))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ocotea psychotrioides Kunth"
 ]
}

 The dataset includes 74 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0198458-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.52hcfk
title: Occurrence Download

description: A dataset containing 2416 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Euglossa viridissima Friese, 1899"
 ]
}

 The dataset includes 2416 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0034041-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.offwap
title: Occurrence Download

description: A dataset containing 413272 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is DATAVES"
 ]
}

 The dataset includes 413272 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004453-170627171947987/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.whvh9d
title: Occurrence Download

description: A dataset containing 1971376 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Lepidoptera)",
 "Country is Austria"
 ]
}

 The dataset includes 1971376 records from 139 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025527-231002084531237/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10984170
title: How can CotB2V80L alter the product profile? Supporting Information

description: Docking results, electrostatic maps and volume calculation.

CHARMM scripts for electrostatic calculation and python scripts for Monte Carlo integration on pocket volume and assement of extra volume.
DOI: 10.5281/zenodo.10984171
title: How can CotB2V80L alter the product profile? Supporting Information

description: Docking results, electrostatic maps and volume calculation.

CHARMM scripts for electrostatic calculation and python scripts for Monte Carlo integration on pocket volume and assement of extra volume.
DOI: 10.15468/dl.ugze37
title: Occurrence Download

description: A dataset containing 357 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Sedum pusillum Michx."
 ]
}

 The dataset includes 357 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018040-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10557237
title: Divergent evolution of sleep functions - Joyce et al 2024 Dataset - Part 2 of 4

description: This is the full experimental dataset associated to "Divergent evolution of sleep functions" by Joyce et al 2024, Nature Communications. See https://lab.gilest.ro/papers/divergent-evolution-of-sleep-functions/ for more information.

The dataset contains 86 zip files for a total of about 170GB. Once uncompressed, they will explode 622 ethoscope db files for a total of 330Gb, covering behavioural analysis of more than 11.000 animals. These are the RAW data as collected from the ethoscopes. A separate zip archive with all the R/Python scripts and the metadata is also provided.  This also contains confocal images for BRP analysis.



Part 1 of 4: 10.5281/zenodo.10554851 

Part 2 of 4: 10.5281/zenodo.10557238 (this page)

Part 3 of 4: 10.5281/zenodo.10557310

Part 4 of 4: 10.5281/zenodo.10966461
DOI: 10.5281/zenodo.10557238
title: Divergent evolution of sleep functions - Joyce et al 2024 Dataset - Part 2 of 4

description: This is the full experimental dataset associated to "Divergent evolution of sleep functions" by Joyce et al 2024, Nature Communications. See https://lab.gilest.ro/papers/divergent-evolution-of-sleep-functions/ for more information.

The dataset contains 86 zip files for a total of about 170GB. Once uncompressed, they will explode 622 ethoscope db files for a total of 330Gb, covering behavioural analysis of more than 11.000 animals. These are the RAW data as collected from the ethoscopes. A separate zip archive with all the R/Python scripts and the metadata is also provided.  This also contains confocal images for BRP analysis.



Part 1 of 4: 10.5281/zenodo.10554851 

Part 2 of 4: 10.5281/zenodo.10557238 (this page)

Part 3 of 4: 10.5281/zenodo.10557310

Part 4 of 4: 10.5281/zenodo.10966461
DOI: 10.5281/zenodo.10673294
title: Modelling Cell Shape in 3D Structured Environments: A Quantitative Comparison with Experiments

description: This repository contains experimental data and computer scripts for the following publication: Link R, Jaggy M, Bastmeyer M, Schwarz US (2024) Modelling cell shape in 3D structured environments: A quantitative comparison with experiments. PLoS Comput Biol 20(4): e1011412. https://doi.org/10.1371/journal.pcbi.1011412

There are two directories, “data” and “scripts”.

 1)     Directory data

 WRL-files for experimental data generated with Imaris from Zeiss image files.

The WRL-files can be converted to STL-files with MeshLab (https://www.meshlab.net).

The STL-files can be converted to FE-files for the SurfaceEvolver with our script CreateFeFile.py.

 The WRL-files are named according to the scaffolds:

L*.wrl cells in L-shaped scaffolds (n=6).

V*.wrl cells in V-shaped scaffolds (n=7).

TRight*.wrl cells in right-triangle scaffolds (n=3).

TEqui*.wrl cells in equilateral-triangle scaffolds (n=4).

2)     Directory scripts

ClusterSurfaceLinearPlugin: New CompuCell3D plugin needed to calculate linear surface energy functional for cells with nucleus (using the cluster concept).

CompuCell3DScript: Hamiltonian_Comparison.cc3d is the main script for our simulations, uses the directory “Simulation”.

CreateFeFile.py: generates surface evolver FE-file from STL-file. A STL-file can be generated from a WRL-file e.g. with MeshLab (https://www.meshlab.net). 

SphericalHarmonicsAnalysis.ipynb: Python notebook that calculates the Fourier spectrum and Delta_30, needs WRL-file as input.
DOI: 10.5281/zenodo.10673295
title: Modelling Cell Shape in 3D Structured Environments: A Quantitative Comparison with Experiments

description: This repository contains experimental data and computer scripts for the following publication: Link R, Jaggy M, Bastmeyer M, Schwarz US (2024) Modelling cell shape in 3D structured environments: A quantitative comparison with experiments. PLoS Comput Biol 20(4): e1011412. https://doi.org/10.1371/journal.pcbi.1011412

There are two directories, “data” and “scripts”.

 1)     Directory data

 WRL-files for experimental data generated with Imaris from Zeiss image files.

The WRL-files can be converted to STL-files with MeshLab (https://www.meshlab.net).

The STL-files can be converted to FE-files for the SurfaceEvolver with our script CreateFeFile.py.

 The WRL-files are named according to the scaffolds:

L*.wrl cells in L-shaped scaffolds (n=6).

V*.wrl cells in V-shaped scaffolds (n=7).

TRight*.wrl cells in right-triangle scaffolds (n=3).

TEqui*.wrl cells in equilateral-triangle scaffolds (n=4).

2)     Directory scripts

ClusterSurfaceLinearPlugin: New CompuCell3D plugin needed to calculate linear surface energy functional for cells with nucleus (using the cluster concept).

CompuCell3DScript: Hamiltonian_Comparison.cc3d is the main script for our simulations, uses the directory “Simulation”.

CreateFeFile.py: generates surface evolver FE-file from STL-file. A STL-file can be generated from a WRL-file e.g. with MeshLab (https://www.meshlab.net). 

SphericalHarmonicsAnalysis.ipynb: Python notebook that calculates the Fourier spectrum and Delta_30, needs WRL-file as input.