cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29980600
title: Mishra et al., Rehydration rescues <i>Il22</i><sup><em>-/-</em></sup> mice from lethal <i>Citrobacter rodentium</i> infection, 2025

description: IL-22 is considered essential for host survival during <i>C. rodentium</i> infection, yet the cause of death was not well understood. Here, we show that <i>Il22</i><sup><em>-/-</em></sup> mice succumb due to dehydration, and that Fluid therapy prevents mortality, revealing IL-22-independent recovery mechanisms. These findings overturn the prevailing paradigm that IL-22 is indispensable for host survival, redefining its role in mucosal immunity.
DOI: 10.6084/m9.figshare.29980600.v2
title: Mishra et al., Rehydration rescues <i>Il22</i><sup><em>-/-</em></sup> mice from lethal <i>Citrobacter rodentium</i> infection, 2025

description: IL-22 is considered essential for host survival during <i>C. rodentium</i> infection, yet the cause of death was not well understood. Here, we show that <i>Il22</i><sup><em>-/-</em></sup> mice succumb due to dehydration, and that Fluid therapy prevents mortality, revealing IL-22-independent recovery mechanisms. These findings overturn the prevailing paradigm that IL-22 is indispensable for host survival, redefining its role in mucosal immunity.
DOI: 10.6084/m9.figshare.29980600.v1
title: Mishra et al., Rehydration rescues <i>Il22</i><sup><em>-/-</em></sup> mice from lethal <i>Citrobacter rodentium</i> infection, 2025

description: IL-22 is considered essential for host survival during <i>C. rodentium</i> infection, yet the cause of death was not well understood. Here, we show that <i>Il22</i><sup><em>-/-</em></sup> mice succumb due to dehydration, and that Fluid therapy prevents mortality, revealing IL-22-independent recovery mechanisms. These findings overturn the prevailing paradigm that IL-22 is indispensable for host survival, redefining its role in mucosal immunity.
DOI: 10.15468/dl.r4zsja
title: Occurrence Download

description: A dataset containing 585 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Albizia julibrissin julibrissin"
 ]
}

 The dataset includes 585 records from 37 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002989-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tqr3t4
title: Occurrence Download

description: A dataset containing 346252 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-76.14935 9.19095,-75.5297 8.79959,-74.64914 8.5713,-74.16809 8.76698,-73.90718 9.11757,-73.88272 9.63123,-73.88272 10.25904,-74.17624 10.87054,-74.323 11.13145,-74.97527 11.20483,-75.49708 10.86239,-75.80691 10.47103,-75.9129 9.9329,-76.14935 9.19095))",
 "OccurrenceStatus is Present",
 "TaxonKey is Tracheophyta"
 ]
}

 The dataset includes 346252 records from 197 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002951-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d2mfyc
title: Occurrence Download

description: A dataset containing 14675 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is COL.29.25_2",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 14675 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002990-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9wertc
title: Occurrence Download

description: A dataset containing 104342 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "NetworkKey is 99d66b6c-9087-452f-a9d4-f15f2c2d0e7e",
 "TaxonKey is Chordata"
 ]
 },
 {
 "and" : [
 "Geometry POLYGON((-92.66255 13.34772,-90.73417 17.54479,-86.1968 17.99853,-86.1968 25.93893,-97.88053 26.1658,-101.28356 30.24943,-104.45972 29.68226,-106.7284 32.29125,-118.86587 32.63155,-104.34628 13.9149,-92.66255 13.34772))",
 "TaxonKey is one of (Chiroptera [GBIF Backbone Taxonomy])",
 "Country is one of (Mexico)",
 {
 "not" : {
 "StateProvince" : [
 "is one of (New Mexico, Texas, Arizona)"
 ]
 }
 }
 ]
 }
 ]
}

 The dataset includes 104342 records from 96 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002942-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wgz2hs
title: Occurrence Download

description: A dataset containing 548 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Royal Ontario Museum - Mammalogy",
 "OccurrenceStatus is Present",
 "TaxonKey is Tamias minimus"
 ]
}

 The dataset includes 548 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002992-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2fedb6
title: Occurrence Download

description: A dataset containing 2620 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Agave salmiana"
 ]
}

 The dataset includes 2620 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002993-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.epdnav
title: Occurrence Download

description: A dataset containing 588 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((-105.1794 -26.17925, -105.6794 -26.17925, -105.6794 -26.67925, -105.1794 -26.67925, -104.6794 -26.67925, -104.6794 -26.17925, -105.1794 -26.17925))",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 588 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002991-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17456923
title: Systematic Review Literatue Set
DOI: 10.5281/zenodo.17456922
title: Systematic Review Literatue Set
DOI: 10.5281/zenodo.17455934
title: Structural characteristics of local cortical networks wired by distance dependent connectivity rules

description: This dataset contains the results of a computational study investigating local connectivity in the cerebral cortex. Distance-dependent (DD) connectivity rules are compared with configuration-model (CM) networks, in which spatial relationships between neurons are randomized while preserving each neuron’s in- and out-degree.

We model a two-dimensional square sheet of 101 × 101 pyramidal neurons (10,201 total). Neurons are indexed from left to right, row by row, starting at the top left. In all data files, a directed connection is written as “presynaptic → postsynaptic” (e.g., 54->8576).



Distance-dependent connectivity

DD networks are based on Gaussian distance-dependent profiles:

Two domain-specific scenarios were implemented:





Anatomical scenario





connection probability at zero distance: 0.8.




standard deviation of the Gaussian kernel: systematically varied from 1 to 10 (integers)






Electrophysiological scenarioConnectivity profiles were derived from the following studies:





Holmgren et al. (2003), J. Physiology 551(Pt 1), 139–153. 




Levy & Reyes (2012), J. Neuroscience 32(16), 5609–5619. 




Perin et al. (2011), PNAS 108(13), 5419–5424. 





 



Files included: DD networks





networkDDanatomy – anatomical scenario




networkDDholmgren – based on Holmgren et al. (2003)




networkDDlevyandreyes – based on Levy & Reyes (2012)




networkDDperin – based on Perin et al. (2011)





Configuration-model networks

Configuration-model (CM) networks preserve the in-degree and out-degree of each neuron from their DD counterparts, but otherwise connections are randomized.

Corresponding CM files:





networkCManatomy




networkCMholmgren




networkCMlevyandreyes




networkCMperin





File format

All networks are provided as .rtf files with readable directed-edge lists.
DOI: 10.5281/zenodo.17455933
title: Structural characteristics of local cortical networks wired by distance dependent connectivity rules

description: This dataset contains the results of a computational study investigating local connectivity in the cerebral cortex. Distance-dependent (DD) connectivity rules are compared with configuration-model (CM) networks, in which spatial relationships between neurons are randomized while preserving each neuron’s in- and out-degree.

We model a two-dimensional square sheet of 101 × 101 pyramidal neurons (10,201 total). Neurons are indexed from left to right, row by row, starting at the top left. In all data files, a directed connection is written as “presynaptic → postsynaptic” (e.g., 54->8576).



Distance-dependent connectivity

DD networks are based on Gaussian distance-dependent profiles:

Two domain-specific scenarios were implemented:





Anatomical scenario





connection probability at zero distance: 0.8.




standard deviation of the Gaussian kernel: systematically varied from 1 to 10 (integers)






Electrophysiological scenarioConnectivity profiles were derived from the following studies:





Holmgren et al. (2003), J. Physiology 551(Pt 1), 139–153. 




Levy & Reyes (2012), J. Neuroscience 32(16), 5609–5619. 




Perin et al. (2011), PNAS 108(13), 5419–5424. 





 



Files included: DD networks





networkDDanatomy – anatomical scenario




networkDDholmgren – based on Holmgren et al. (2003)




networkDDlevyandreyes – based on Levy & Reyes (2012)




networkDDperin – based on Perin et al. (2011)





Configuration-model networks

Configuration-model (CM) networks preserve the in-degree and out-degree of each neuron from their DD counterparts, but otherwise connections are randomized.

Corresponding CM files:





networkCManatomy




networkCMholmgren




networkCMlevyandreyes




networkCMperin





File format

All networks are provided as .rtf files with readable directed-edge lists.
DOI: 10.15468/dl.pdbf4u
title: Occurrence Download

description: A dataset containing 235282 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Machine Observation)",
 "Continent is Africa",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Mammalia",
 "Year 2020-2025"
 ]
}

 The dataset includes 235282 records from 106 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002937-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17454201
title: Source dataset for Kinetics of stacking order evolution during heterogeneous ice formation

description:     This repository provides the original image data used in the study “Kinetics of stacking order evolution during heterogeneous ice formation,” . The data were obtained from in situ cryo-transmission electron microscopy  experiments and correspond to figures and analyses presented in the manuscript.
DOI: 10.5281/zenodo.17454200
title: Source dataset for Kinetics of stacking order evolution during heterogeneous ice formation

description:     This repository provides the original image data used in the study “Kinetics of stacking order evolution during heterogeneous ice formation,” . The data were obtained from in situ cryo-transmission electron microscopy  experiments and correspond to figures and analyses presented in the manuscript.
DOI: 10.5522/04/30455555
title: PRION Degradome Foundation Atlas

description: This open-access dataset presents Version 1 of the Prion Degradome Foundation Atlas, a curated proteolytic peptide resource designed to advance translational research in prion biology and this devastating neurodegenerative disease. The atlas integrates proteolytic fragments derived from the human prion protein (PrP), encompassing wild-type (PrP<sup>C</sup>) and pathogenic isoforms (PrP<sup>Sc</sup>) associated with heriditary spongiform encephalopathies. By systematically mapping and annotating these cleavage products, the dataset provides a foundational framework for understanding prion conversion, aggregation, and clearance mechanisms. These data are particularly relevant for clinical and translational researchers engaged in studies on sporadic, genetic, or acquired prion diseases, and for those developing biomarker-guided diagnostics or therapeutic interventions. The atlas enables cross-referencing of peptide signatures with disease stage, strain type, and treatment response, supporting biomarker discovery, patient stratification, and validation of disease-modifying strategies. Each peptide entry is annotated with detailed chemical and positional information on its proteolytic origin. The dataset is provided as a tab-delimited ASCII (.txt) file for seamless integration into bioinformatics and statistical pipelines. <b>Reproducibility</b>All datasets can be regenerated using open-source tools (Python, BLAST, SAS). Fully documented Python scripts are included in the repository to ensure transparency, reproducibility, and adaptability across computational environments, following the methodology described in [1].<b>Reference</b><br>[1] Petzold A. <i>Proteolysis-Based Biomarker Repertoire of the Neurofilament Proteome.</i> J Neurochem. 2025 Mar;169(3):e70023. doi: 10.1111/jnc.70023. PMID: 40066701; PMCID: PMC11894590.
DOI: 10.5522/04/30455555.v1
title: PRION Degradome Foundation Atlas

description: This open-access dataset presents Version 1 of the Prion Degradome Foundation Atlas, a curated proteolytic peptide resource designed to advance translational research in prion biology and this devastating neurodegenerative disease. The atlas integrates proteolytic fragments derived from the human prion protein (PrP), encompassing wild-type (PrP<sup>C</sup>) and pathogenic isoforms (PrP<sup>Sc</sup>) associated with heriditary spongiform encephalopathies. By systematically mapping and annotating these cleavage products, the dataset provides a foundational framework for understanding prion conversion, aggregation, and clearance mechanisms. These data are particularly relevant for clinical and translational researchers engaged in studies on sporadic, genetic, or acquired prion diseases, and for those developing biomarker-guided diagnostics or therapeutic interventions. The atlas enables cross-referencing of peptide signatures with disease stage, strain type, and treatment response, supporting biomarker discovery, patient stratification, and validation of disease-modifying strategies. Each peptide entry is annotated with detailed chemical and positional information on its proteolytic origin. The dataset is provided as a tab-delimited ASCII (.txt) file for seamless integration into bioinformatics and statistical pipelines. <b>Reproducibility</b>All datasets can be regenerated using open-source tools (Python, BLAST, SAS). Fully documented Python scripts are included in the repository to ensure transparency, reproducibility, and adaptability across computational environments, following the methodology described in [1].<b>Reference</b><br>[1] Petzold A. <i>Proteolysis-Based Biomarker Repertoire of the Neurofilament Proteome.</i> J Neurochem. 2025 Mar;169(3):e70023. doi: 10.1111/jnc.70023. PMID: 40066701; PMCID: PMC11894590.
DOI: 10.15468/dl.xhzkt9
title: Occurrence Download

description: A dataset containing 1094266 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Proteaceae"
 ]
}

 The dataset includes 1094266 records from 1082 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002911-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ybytjy
title: Occurrence Download

description: A dataset containing 120 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aphis polygonata (Nevsky, 1929)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 120 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009795-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15031465
title: Supplemental Material for "Final Results of GERDA on the Search for Neutrinoless Double-𝛽 Decay"

description: This data set supplements "Final Results of GERDA on the Search for Neutrinoless Double-𝛽 Decay" and includes further information about the statistical analysis complementing what is provided in the in the Supplemental Material of the original publication.

[gerda-event-list.csv] Table of events detected by GERDA in the [1930, 2160] keV HPGe energy range surviving all cuts.

[gerda-partition-parameters.csv] Table of GERDA experimental parameters for each HPGe detector and each time period characterized by stable performance. The combined 0vbb acceptance incorporates all other acceptances and enrichment fractions, with uncertainties added in quadrature. energy_bias_in_keV is defined as the Q-value of double-beta decay (2039.06 keV) minus calibrated energy. See "Final Results of GERDA on the Search for Neutrinoless Double-𝛽 Decay" for more details about the definition of these parameters and how they are used in the likelihood function for the 0vbb analysis.
description: The full list of authors can be found at "Final Results of GERDA on the Search for Neutrinoless Double-𝛽 Decay".
DOI: 10.5281/zenodo.15031466
title: Supplemental Material for "Final Results of GERDA on the Search for Neutrinoless Double-𝛽 Decay"

description: This data set supplements "Final Results of GERDA on the Search for Neutrinoless Double-𝛽 Decay" and includes further information about the statistical analysis complementing what is provided in the in the Supplemental Material of the original publication.

[gerda-event-list.csv] Table of events detected by GERDA in the [1930, 2160] keV HPGe energy range surviving all cuts.

[gerda-partition-parameters.csv] Table of GERDA experimental parameters for each HPGe detector and each time period characterized by stable performance. The combined 0vbb acceptance incorporates all other acceptances and enrichment fractions, with uncertainties added in quadrature. energy_bias_in_keV is defined as the Q-value of double-beta decay (2039.06 keV) minus calibrated energy. See "Final Results of GERDA on the Search for Neutrinoless Double-𝛽 Decay" for more details about the definition of these parameters and how they are used in the likelihood function for the 0vbb analysis.
description: The full list of authors can be found at "Final Results of GERDA on the Search for Neutrinoless Double-𝛽 Decay".
DOI: 10.15468/dl.f6ezgv
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Brachycaudus prunicola (Kaltenbach, 1843)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 52 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009798-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5gtegb
title: Occurrence Download

description: A dataset containing 6749 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is MGC Herbarium of University of Malaga (Spain): MGC-Briof dataset"
 ]
}

 The dataset includes 6749 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009799-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xqgxz2
title: Occurrence Download

description: A dataset containing 116 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Observation, Machine Observation, Human Observation, Occurrence evidence)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Melanocetus johnsonii Günther, 1864",
 "Year 1901-2025"
 ]
}

 The dataset includes 116 records from 16 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009801-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jpkusw
title: Occurrence Download

description: A dataset containing 42 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Brachycaudus rumexicolens (Patch, 1917)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 42 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009803-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15031529
title: Large Language Models Aided API Misuse Repair
DOI: 10.5281/zenodo.15031530
title: Large Language Models Aided API Misuse Repair
DOI: 10.15468/dl.s5uns8
title: Occurrence Download

description: A dataset listing the 670 species recorded in GBIF matching the query:
{
 "DatasetKey" : [
 "is MGC Herbarium of University of Malaga (Spain): MGC-Briof dataset"
 ]
}

 The dataset's 670 records were derived from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009802-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wkvrtu
title: Occurrence Download

description: A dataset containing 299 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "GadmGid is BRA.15_1",
 "OccurrenceStatus is Present",
 "TaxonKey is one of (Senna uniflora (Mill.) H.S.Irwin & Barneby, Senna spectabilis var. excelsa (Schrad.) H.S.Irwin & Barneby, Senna occidentalis (L.) Link, Senna obtusifolia (L.) H.S.Irwin & Barneby, Senna martiana (Benth.) H.S.Irwin & Barneby, Senna georgica H.S.Irwin & Barneby, Senna alata (L.) Roxb.)"
 ]
}

 The dataset includes 299 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009804-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/11039951
title: Visual Scene Instructions for Generative LLMs
DOI: 10.5281/zenodo.7417787
title: Supplemental material for "Liquid argon light collection and veto modeling in GERDA Phase II"

description: Data set for Fig. 7 of "Liquid argon light collection and veto modeling in GERDA Phase II", scientific publicaton by the GERDA Collaboration.
description: Full list of authors can be found in the main publication.
DOI: 10.5281/zenodo.7417788
title: Supplemental material for "Liquid argon light collection and veto modeling in GERDA Phase II"

description: Data set for Fig. 7 of "Liquid argon light collection and veto modeling in GERDA Phase II", scientific publicaton by the GERDA Collaboration.
description: Full list of authors can be found in the main publication.