cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh2021937.08fu
title: SH2021937.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2021938.08fu
title: SH2021938.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1341717.08fu
title: SH1341717.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1341718.08fu
title: SH1341718.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2021939.08fu
title: SH2021939.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2021940.08fu
title: SH2021940.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1341719.08fu
title: SH1341719.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1341720.08fu
title: SH1341720.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh2021941.08fu
title: SH2021941.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15468/dl.y6f5jw
title: Occurrence Download

description: A dataset containing 871 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Arctosa lutetiana (Simon, 1876)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 871 records from 62 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0095428-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cfdfnr
title: Occurrence Download

description: A dataset containing 346351 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "MULTIPOLYGON(((77.848223789567 22.4652407491899,79.0040646097717 21.2317802283717,79.4698525464799 21.5683138816661,78.2752079567437 22.7120422122894,77.848223789567 22.4652407491899)))"
 ]
}

 The dataset includes 346351 records from 77 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0095314-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dhtmrc
title: Occurrence Download

description: A dataset containing 491 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Cixius similis (Kirschbaum, 1868)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 491 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0095429-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3m2vms
title: Occurrence Download

description: A dataset containing 7730 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Philaeus chrysops (Poda, 1761)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 7730 records from 295 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0095430-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c5xhvv
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Draba narmanensis Yild.)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 100",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0095431-240626123714530/datasets/export for details.
DOI: 10.6084/m9.figshare.26830564
title: MT2 Methylation, Parental Behavior, Attachment and Neuroticism

description: Research focusing on the moderating effect of neuroticism on the association between parental behavior and adult attachment. Additionally, OXTR MT2 methylation is considered as a potential mediatior
DOI: 10.6084/m9.figshare.26830564.v1
title: MT2 Methylation, Parental Behavior, Attachment and Neuroticism

description: Research focusing on the moderating effect of neuroticism on the association between parental behavior and adult attachment. Additionally, OXTR MT2 methylation is considered as a potential mediatior
DOI: 10.15468/dl.9fxxck
title: Occurrence Download

description: A dataset containing 18 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Carabus wiedemanni Ménétriés, 1836",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 18 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0095433-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13374034
title: ENDGAME - Laboratory Experiment 2024-01-18 Exp. 016 - High Speed Camera data

description: Shock-tube experiments in combination with high speed Schlieren shadow photography. 

The shocktube setup consists of a high-pressure reservoir connected with a cylindrical tube through a diaphragm pulse valve which allows a fast release of pressurized gas into the ambient pressure tube. The high-pressure reservoir is filled with compressed air at a given overpressure with respect to ambient pressure (up to 8 bar). The pipe was either empty (i.e. with air at ambient conditions) or filled with a given amount of small particles. We adopted pipes an inner diameter of 4 cm and different lengths (20, 30 and 80 cm). We also considered different volumes of pressurized gas (~650 cm3 and ~1550 cm3). A pressure sensor has been placed at the vent of the conduit to record pressure variations during experiments. Images from the high speed camera were collected at a frame rate of 30000 fps.

When the valve is open, a jet flow is produced, with shock and acoustic waves propagating in the atmosphere, which become visible due to the high speed Schlieren shadow photography.
DOI: 10.5281/zenodo.13374035
title: ENDGAME - Laboratory Experiment 2024-01-18 Exp. 016 - High Speed Camera data

description: Shock-tube experiments in combination with high speed Schlieren shadow photography. 

The shocktube setup consists of a high-pressure reservoir connected with a cylindrical tube through a diaphragm pulse valve which allows a fast release of pressurized gas into the ambient pressure tube. The high-pressure reservoir is filled with compressed air at a given overpressure with respect to ambient pressure (up to 8 bar). The pipe was either empty (i.e. with air at ambient conditions) or filled with a given amount of small particles. We adopted pipes an inner diameter of 4 cm and different lengths (20, 30 and 80 cm). We also considered different volumes of pressurized gas (~650 cm3 and ~1550 cm3). A pressure sensor has been placed at the vent of the conduit to record pressure variations during experiments. Images from the high speed camera were collected at a frame rate of 30000 fps.

When the valve is open, a jet flow is produced, with shock and acoustic waves propagating in the atmosphere, which become visible due to the high speed Schlieren shadow photography.
DOI: 10.5281/zenodo.10645168
title: Cicuta-Group/Emma-Kals-Optical-Tweezer-paper: Initial release

description: Initial release before submission
DOI: 10.5281/zenodo.10645167
title: Application of optical tweezer technology reveals that PfEBA and PfRH ligands, not PfMSP1, play a central role in Plasmodium-falciparum merozoite-erythrocyte attachment, Supporting Information

description: This repository contains the dataset and analysis scripts associated with the upcoming publication titled Application of optical tweezer technology reveals that PfEBA and PfRH ligands, not PfMSP1, play a central role in Plasmodium-falciparum merozoite-erythrocyte attachment. The repository includes a comprehensive collection of data and scripts related to optical tweezer experiments, growth assays, qPCR data, and supplementary information. It is organized into several sections, each detailing different aspects of the study:



Growth Assays: Includes raw and processed data on parasitemia levels, invasion rates, and growth rate assays, along with corresponding Jupyter notebooks and Python scripts for data visualization (e.g., GrowthAssayPlotlib.py, Plot GA1.ipynb, and GA2_df_melted.json).

qPCR Data: Contains results from multiple qPCR runs, including quantification data for various samples, as well as analysis scripts and plotted results (qpcr_plotbench.ipynb, qPCR_plotting.py, etc.). Data files such as .xlsx and .json contain gene expression data and fold changes to NF54.

Optical Tweezer Experiments: Includes detailed results and plots from optical tweezer measurements of attachment forces, time dependence, and multiple merozoite attachments. Notebooks (tweezer_plots.ipynb, Antibody_binding_assay_plots.ipynb) and data files support these analyses.

Optical Tweezer Images: Includes images that were used to measure RBC diameters for deformation and force measurements in .tiff format.

Supplementary Information (SI): Provides additional data and visualizations, such as scatter plots of two stretched RBCs, time post-egress vs. detachment force, and antibody GIA flow data. The accompanying figures (e.g., SupFig1d_egress time vs force_3D7.svg, SupFig5a_GIA.svg) are provided as .svg files.


This repository offers all necessary resources to replicate the findings, including the complete codebase, raw data, and graphical representations of results. Researchers are encouraged to explore the included notebooks and datasets for detailed insights.
DOI: 10.5281/zenodo.13371447
title: Application of optical tweezer technology reveals that PfEBA and PfRH ligands, not PfMSP1, play a central role in Plasmodium-falciparum merozoite-erythrocyte attachment, Supporting Information

description: This repository contains the dataset and analysis scripts associated with the upcoming publication titled Application of optical tweezer technology reveals that PfEBA and PfRH ligands, not PfMSP1, play a central role in Plasmodium-falciparum merozoite-erythrocyte attachment. The repository includes a comprehensive collection of data and scripts related to optical tweezer experiments, growth assays, qPCR data, and supplementary information. It is organized into several sections, each detailing different aspects of the study:



Growth Assays: Includes raw and processed data on parasitemia levels, invasion rates, and growth rate assays, along with corresponding Jupyter notebooks and Python scripts for data visualization (e.g., GrowthAssayPlotlib.py, Plot GA1.ipynb, and GA2_df_melted.json).

qPCR Data: Contains results from multiple qPCR runs, including quantification data for various samples, as well as analysis scripts and plotted results (qpcr_plotbench.ipynb, qPCR_plotting.py, etc.). Data files such as .xlsx and .json contain gene expression data and fold changes to NF54.

Optical Tweezer Experiments: Includes detailed results and plots from optical tweezer measurements of attachment forces, time dependence, and multiple merozoite attachments. Notebooks (tweezer_plots.ipynb, Antibody_binding_assay_plots.ipynb) and data files support these analyses.

Optical Tweezer Images: Includes images that were used to measure RBC diameters for deformation and force measurements in .tiff format.

Supplementary Information (SI): Provides additional data and visualizations, such as scatter plots of two stretched RBCs, time post-egress vs. detachment force, and antibody GIA flow data. The accompanying figures (e.g., SupFig1d_egress time vs force_3D7.svg, SupFig5a_GIA.svg) are provided as .svg files.


This repository offers all necessary resources to replicate the findings, including the complete codebase, raw data, and graphical representations of results. Researchers are encouraged to explore the included notebooks and datasets for detailed insights.
DOI: 10.6084/m9.figshare.26830690
title: Pancreatic endocrinogenesis sn-RNAseq

description: This is the RNA-seq part of the multiome dataset published with "Mapping cells through time and space with moscot". The full data is available via GEO accession code GSE275562.
DOI: 10.15468/dl.z3m3uh
title: Occurrence Download

description: A dataset containing 3403 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Arctosa perita (Latreille, 1799)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 3403 records from 148 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0095434-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.r76jjk
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Cixius cambricus China, 1935",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 15 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0095435-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.