cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.60964/bndu-wv4h-0734
title: Using Targeted Memory Reactivation to generate new, adaptive behaviours: code and data

description: Using a pre-registered task design and analysis, this dataset contains button press responses recorded during learning and test periods of a Targeted Memory Reactivation (TMR) task in humans. The task was designed to explore how contextual memory reactivation during awake rest influences consolidation of associative memory and the discovery of hidden relationships, such as non-directly trained relationships that support novel inference. The data have been used for the paper "Memory reactivation generates new, adaptive behaviours that reach beyond direct experience". 

The raw behavioural data from 40 participants is provided in MATLAB (.mat) format. It also includes MATLAB (.m) and Jupyter Notebooks (.ipynb) to analyse the data to generate all figures.

Please see the paper's Methods and Results sections for details of the experiment, and prerequisite versions of libraries and environments.
DOI: 10.15468/dl.mmx943
title: Occurrence Download

description: A dataset containing 65 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Culcita macrocarpa C.Presl)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 65 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002033-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a5v7ds
title: Occurrence Download

description: A dataset containing 1983 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Celastrus orbiculatus Thunb.",
 "Year 1970-2000"
 ]
}

 The dataset includes 1983 records from 123 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002034-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kzwbqx
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eurya stenophylla Merr.",
 "Year 1970-2000"
 ]
}

 The dataset includes 48 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002035-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x8sw2e
title: Occurrence Download

description: A dataset containing 31 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Dianthus rupicola Biv.)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 31 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002036-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sn8am4
title: Occurrence Download

description: A dataset listing the 1 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Oligodon juglandifer (Wall, 1909)"
 ]
}

 The dataset's 1 records were derived from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002025-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xrsmyu
title: Occurrence Download

description: A dataset containing 640 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Chionanthus ramiflorus Roxb.",
 "Year 1970-2000"
 ]
}

 The dataset includes 640 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002037-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2njn3p
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Diplazium caudatum (Cav.) Jermy)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 52 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002038-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5523/bris.3lgjkhzhn24qs2qp65dimo8tan
title: River Thames Historical Water Quality Data

description: This dataset comprises historical water quality data, and associated other information, used in an accompanying publication, Jarvie et al. (2025), see full citation below. No particular operating system is required, and no particular software is necessary to use the data. There are no other dependencies, and all units of measurement are provided in the enclosed spreadsheet. Any additional metadata/descriptors can be found in the open-access journal paper and its associated supplementary information.

These historical data for the River Thames at Teddington, UK, are published in:

Jarvie, H.P., Worrall, F, Burt, T.P., Howden, N.J.K. A 150-year river water quality record shows reductions in phosphorus loads but not in algal growth potential. Commun Earth Environ 6, 62 (2025). https://doi.org/10.1038/s43247-024-01978-4
DOI: 10.15468/dl.2r4czy
title: Occurrence Download

description: A dataset containing 118 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Garuga forrestii W.W.Sm."
 ]
}

 The dataset includes 118 records from 14 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002039-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zsqg7k
title: Occurrence Download

description: A dataset containing 175 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Styrax confusus Hemsl.",
 "Year 1970-2000"
 ]
}

 The dataset includes 175 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002040-250310093411724/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.28573259
title: Atractylodes lancea genome sequence and annotation files

description: Atractylodes lancea genome sequence and annotation files
DOI: 10.34808/9cn3-yv48
title: High sensitivity voltammetric sensor of 4-nitrotoluene based on nanoflake-rich boron-doped carbon nanowall electrode for water safety - raw data

description: Raw data of the paper: https://doi.org/10.1007/s00604-025-07065-5
DOI: 10.15468/dl.y9afbv
title: Occurrence Download

description: A dataset containing 144 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Diplotaxis ibicensis (Pau) Gómez-Campo)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 144 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002041-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r5bgqn
title: Occurrence Download

description: A dataset containing 12 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Eurya patentipila Chun",
 "Year 1970-2000"
 ]
}

 The dataset includes 12 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002042-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.11203684
title: An integrated transcriptomic cell atlas of human neural organoids: Cleaned datasets

description: This deposition includes the datasets in h5ad format for the following publication: 



He, Z., Dony, L., Fleck, J.S. et al. An integrated transcriptomic cell atlas of human neural organoids. Nature 635, 690–698 (2024). https://doi.org/10.1038/s41586-024-08172-8


The file `hnoca_cleanedmeta.h5ad` is a cleaned up version of the HNOCA dataset. While it contains all cells, some metadata and representations originating from intermediate processing steps are removed. You can find the full (and significantly larger) object in a second Zenodo deposition.

You can find the minimal HNOCA and primary reference h5ad files for query-to-reference-mapping in a third Zenodo deposition.

 

Abstract:

Neural tissues generated from human pluripotent stem cells in vitro (known as neural organoids) are becoming useful tools to study human brain development, evolution and disease. The characterization of neural organoids using single-cell genomic methods has revealed a large diversity of neural cell types with molecular signatures similar to those observed in primary human brain tissue. However, it is unclear which domains of the human nervous system are covered by existing protocols. It is also difficult to quantitatively assess variation between protocols and the specific cell states in organoids as compared to primary counterparts. Single-cell transcriptome data from primary tissue and neural organoids derived with guided or unguided approaches and under diverse conditions combined with large-scale integrative analyses make it now possible to address these challenges. Recent advances in computational methodology enable the generation of integrated atlases across many data sets. Here, we integrated 36 single-cell transcriptomics data sets spanning 26 protocols into one integrated human neural organoid cell atlas (HNOCA) totaling over 1.7 million cells. We harmonize cell type annotations by incorporating reference data sets from the developing human brain. By mapping to the developing human brain reference, we reveal which primary cell states have been generated in vitro, and which are under-represented. We further compare transcriptomic profiles of neuronal populations in organoids to their counterparts in the developing human brain. To support rapid organoid phenotyping and quantitative assessment of new protocols, we provide a programmatic interface to browse the atlas and query new data sets, and showcase the power of the atlas to annotate new query data sets and evaluate new organoid protocols. Taken together, the HNOCA will be useful to assess the fidelity of organoids, characterize perturbed and diseased states and facilitate protocol development in the future.
DOI: 10.5281/zenodo.15004817
title: An integrated transcriptomic cell atlas of human neural organoids: Minimal datasets for mapping

description: This deposition includes the minimal datasets for reference mapping in h5ad format for the following publication: 



He, Z., Dony, L., Fleck, J.S. et al. An integrated transcriptomic cell atlas of human neural organoids. Nature 635, 690–698 (2024). https://doi.org/10.1038/s41586-024-08172-8


Main Zenodo deposition for this paper: https://doi.org/10.5281/zenodo.11203684
DOI: 10.5281/zenodo.15004818
title: An integrated transcriptomic cell atlas of human neural organoids: Minimal datasets for mapping

description: This deposition includes the minimal datasets for reference mapping in h5ad format for the following publication: 



He, Z., Dony, L., Fleck, J.S. et al. An integrated transcriptomic cell atlas of human neural organoids. Nature 635, 690–698 (2024). https://doi.org/10.1038/s41586-024-08172-8


Main Zenodo deposition for this paper: https://doi.org/10.5281/zenodo.11203684
DOI: 10.5281/zenodo.14177937
title: Dataset for "The effect of the unique microstructure of additively manufactured Fe-Mn-Si-Cr shape memory alloys on recovery stress"

description: The uploaded dataset contains all relevant primary data for the publication titled "The effect of the unique microstructure of additively manufactured Fe-Mn-Si-Cr shape memory alloys on recovery stress". 

The data is structured in subfolders:

01_Recovery stress:

Primary data of thermo-mechanical experiments including force, strain and temperature measurements and a data description file.

02_Micrographs:

Image files of etched and unetched sample cross-sections of additively manufactured samples with different Mn content.

03_EBSD:

OIM files of electron backscatter diffraction measurements for all samples. 

04_Chemical analysis

Analysis report of externally perfomed chemical analysis of the used metal powders and the resulting additively manufactured parts.

 

For further information see the publication as soon as published.
DOI: 10.5281/zenodo.14177938
title: Dataset for "The effect of the unique microstructure of additively manufactured Fe-Mn-Si-Cr shape memory alloys on recovery stress"

description: The uploaded dataset contains all relevant primary data for the publication titled "The effect of the unique microstructure of additively manufactured Fe-Mn-Si-Cr shape memory alloys on recovery stress". 

The data is structured in subfolders:

01_Recovery stress:

Primary data of thermo-mechanical experiments including force, strain and temperature measurements. 

02_Micrographs:

Image files of etched and unetched sample cross-sections of additively manufactured samples with different Mn content.

03_EBSD:

OIM files of electron backscatter diffraction measurements for all samples. 

04_Chemical analysis

Analysis report of externally perfomed chemical analysis of the used metal powders and the resulting additively manufactured parts.

 

For further information see the publication as soon as published.
DOI: 10.5281/zenodo.15004932
title: Dataset for "The effect of the unique microstructure of additively manufactured Fe-Mn-Si-Cr shape memory alloys on recovery stress"

description: The uploaded dataset contains all relevant primary data for the publication titled "The effect of the unique microstructure of additively manufactured Fe-Mn-Si-Cr shape memory alloys on recovery stress". 

The data is structured in subfolders:

01_Recovery stress:

Primary data of thermo-mechanical experiments including force, strain and temperature measurements and a data description file.

02_Micrographs:

Image files of etched and unetched sample cross-sections of additively manufactured samples with different Mn content.

03_EBSD:

OIM files of electron backscatter diffraction measurements for all samples. 

04_Chemical analysis

Analysis report of externally perfomed chemical analysis of the used metal powders and the resulting additively manufactured parts.

 

For further information see the publication as soon as published.
DOI: 10.5281/zenodo.15000907
title: Supplementary Material for the Article "The Hypothesis of Slavs Adopting the Runic Writing Challenged"

description: The dataset includes radiocarbon dating of the rune bone and two reference bones previously published in the article by Macháček et al. (2021). Additionally, an output report (Quarto) with R code (Quarto) is included, in which we used the oxcAAR library (Hinz et al., 2021) and the OxCal program (Bronk Ramsey, 1995) to calibrate the radiocarbon dates according to the IntCal20 radiocarbon curve (Reimer et al., 2020).

The research was conducted as part of the project “Ready for the Future: Understanding the Long-Term Resilience of Human Culture” (CZ.02.01.01/00/22_008/0004593).

References





Bronk Ramsey, C. (1995). Radiocarbon calibration and analysis of stratigraphy: The OxCal program. Radiocarbon, 37(2), 425–430. https://c14.arch.ox.ac.uk/oxcalhelp/ref.html




Hinz, M., Schmid, C., Knitter, D., & Tietze, C. (2021). oxcAAR: Interface to 'OxCal' Radiocarbon Calibration. R package version 1.1.1. https://cran.r-project.org/package=oxcAAR




Macháček, J., Nedoma, R., Dresler, P., Schulz, I., Lagonik, E., Johnson, S. M., Kaňáková, L., Slámová, A., Llamas, B., Wegmann, D., & Hofmanová, Z. (2021). Runes from Lány (Czech Republic) - The oldest inscription among Slavs. A new standard for multidisciplinary analysis of runic bones. Journal of Archaeological Science, 127, 105333.




Reimer, P. J., Austin, W. E. N., Bard, E., Bayliss, A., Blackwell, P. G., Bronk Ramsey, C., Butzin, M., Cheng, H., Edwards, R. L., Friedrich, M., Grootes, P. M., Guilderson, T. P., Hajdas, I., Heaton, T. J., Hogg, A. G., Hughen, K. A., Kromer, B., Manning, S. W., Muscheler, R., Palmer, J. G., Pearson, C., van der Plicht, J., Reimer, R. W., Richards, D. A., Scott, E. M., Southon, J. R., Turney, C. S. M., & Wacker, L. (2020). The IntCal20 Northern Hemisphere radiocarbon age calibration curve (0–55 cal kBP). Radiocarbon, 62(4), 725–757. https://doi.org/10.1017/RDC.2020.41
DOI: 10.5281/zenodo.15000906
title: Supplementary Material for the Article "The Hypothesis of Slavs Adopting the Runic Writing Challenged"

description: The dataset includes radiocarbon dating of the rune bone and two reference bones previously published in the article by Macháček et al. (2021). Additionally, an output report (Quarto) with R code (Quarto) is included, in which we used the oxcAAR library (Hinz et al., 2021) and the OxCal program (Bronk Ramsey, 1995) to calibrate the radiocarbon dates according to the IntCal20 radiocarbon curve (Reimer et al., 2020).

The research was conducted as part of the project “Ready for the Future: Understanding the Long-Term Resilience of Human Culture” (CZ.02.01.01/00/22_008/0004593).

References





Bronk Ramsey, C. (1995). Radiocarbon calibration and analysis of stratigraphy: The OxCal program. Radiocarbon, 37(2), 425–430. https://c14.arch.ox.ac.uk/oxcalhelp/ref.html




Hinz, M., Schmid, C., Knitter, D., & Tietze, C. (2021). oxcAAR: Interface to 'OxCal' Radiocarbon Calibration. R package version 1.1.1. https://cran.r-project.org/package=oxcAAR




Macháček, J., Nedoma, R., Dresler, P., Schulz, I., Lagonik, E., Johnson, S. M., Kaňáková, L., Slámová, A., Llamas, B., Wegmann, D., & Hofmanová, Z. (2021). Runes from Lány (Czech Republic) - The oldest inscription among Slavs. A new standard for multidisciplinary analysis of runic bones. Journal of Archaeological Science, 127, 105333.




Reimer, P. J., Austin, W. E. N., Bard, E., Bayliss, A., Blackwell, P. G., Bronk Ramsey, C., Butzin, M., Cheng, H., Edwards, R. L., Friedrich, M., Grootes, P. M., Guilderson, T. P., Hajdas, I., Heaton, T. J., Hogg, A. G., Hughen, K. A., Kromer, B., Manning, S. W., Muscheler, R., Palmer, J. G., Pearson, C., van der Plicht, J., Reimer, R. W., Richards, D. A., Scott, E. M., Southon, J. R., Turney, C. S. M., & Wacker, L. (2020). The IntCal20 Northern Hemisphere radiocarbon age calibration curve (0–55 cal kBP). Radiocarbon, 62(4), 725–757. https://doi.org/10.1017/RDC.2020.41
DOI: 10.5281/zenodo.15004958
title: Supplementary Material for the Article "The Hypothesis of Slavs Adopting the Runic Writing Challenged"

description: The dataset includes radiocarbon dating of the rune bone and two reference bones previously published in the article by Macháček et al. (2021). Additionally, an output report (Quarto) with R code (Quarto) is included, in which we used the oxcAAR library (Hinz et al., 2021) and the OxCal program (Bronk Ramsey, 1995) to calibrate the radiocarbon dates according to the IntCal20 radiocarbon curve (Reimer et al., 2020).

The research was conducted as part of the project “Ready for the Future: Understanding the Long-Term Resilience of Human Culture” (CZ.02.01.01/00/22_008/0004593).

References





Bronk Ramsey, C. (1995). Radiocarbon calibration and analysis of stratigraphy: The OxCal program. Radiocarbon, 37(2), 425–430. https://c14.arch.ox.ac.uk/oxcalhelp/ref.html




Hinz, M., Schmid, C., Knitter, D., & Tietze, C. (2021). oxcAAR: Interface to 'OxCal' Radiocarbon Calibration. R package version 1.1.1. https://cran.r-project.org/package=oxcAAR




Macháček, J., Nedoma, R., Dresler, P., Schulz, I., Lagonik, E., Johnson, S. M., Kaňáková, L., Slámová, A., Llamas, B., Wegmann, D., & Hofmanová, Z. (2021). Runes from Lány (Czech Republic) - The oldest inscription among Slavs. A new standard for multidisciplinary analysis of runic bones. Journal of Archaeological Science, 127, 105333.




Reimer, P. J., Austin, W. E. N., Bard, E., Bayliss, A., Blackwell, P. G., Bronk Ramsey, C., Butzin, M., Cheng, H., Edwards, R. L., Friedrich, M., Grootes, P. M., Guilderson, T. P., Hajdas, I., Heaton, T. J., Hogg, A. G., Hughen, K. A., Kromer, B., Manning, S. W., Muscheler, R., Palmer, J. G., Pearson, C., van der Plicht, J., Reimer, R. W., Richards, D. A., Scott, E. M., Southon, J. R., Turney, C. S. M., & Wacker, L. (2020). The IntCal20 Northern Hemisphere radiocarbon age calibration curve (0–55 cal kBP). Radiocarbon, 62(4), 725–757. https://doi.org/10.1017/RDC.2020.41
DOI: 10.5281/zenodo.13330411
title: Datasets to article "Fingerprints of supersymmetric spin and charge dynamics observed by inelastic neutron scattering"

description: This repository contains the datasets for the article "Fingerprints of supersymmetric spin and charge dynamics observed by inelastic neutron scattering", written by  B. Wehinger, F. T. Lisandrini, N. Kestin, P. Bouillot, S. Ward, R. Bewley, D. Biner, K. W. Krämer, B. Normand, T. Giamarchi, C. Kollath, A. M. Läuchli, and Ch. Rüegg, preprint https://arxiv.org/abs/2408.12626. The data is described by the corresponding "readme.txt" files.
DOI: 10.5281/zenodo.13330410
title: Datasets to article "Fingerprints of supersymmetric spin and charge dynamics observed by inelastic neutron scattering"

description: This repository contains the datasets for the article "Fingerprints of supersymmetric spin and charge dynamics observed by inelastic neutron scattering", written by  B. Wehinger, F. T. Lisandrini, N. Kestin, P. Bouillot, S. Ward, B. Thielemann, R. Bewley, M. Boehm, D. Biner, K. W. Krämer, B. Normand, T. Giamarchi, C. Kollath, A. M. Läuchli, and Ch. Rüegg, preprint https://arxiv.org/abs/2408.12626  The data is described by the corresponding "readme.txt" files. This version of the dataset is for v2 and v3 of the preprint and the published article.
DOI: 10.5281/zenodo.14989856
title: Datasets to article "Fingerprints of supersymmetric spin and charge dynamics observed by inelastic neutron scattering"

description: This repository contains the datasets for the article "Fingerprints of supersymmetric spin and charge dynamics observed by inelastic neutron scattering", written by  B. Wehinger, F. T. Lisandrini, N. Kestin, P. Bouillot, S. Ward, B. Thielemann, R. Bewley, M. Boehm, D. Biner, K. W. Krämer, B. Normand, T. Giamarchi, C. Kollath, A. M. Läuchli, and Ch. Rüegg, preprint https://arxiv.org/abs/2408.12626  The data is described by the corresponding "readme.txt" files. This version of the dataset is for v2 and v3 of the preprint and the published article.