cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.prt3n2
title: Occurrence Download

description: A dataset containing 40172039 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "DatasetKey is one of (Southern African Bird Atlas Project 2, EOD – eBird Observation Dataset)"
 ]
}

 The dataset includes 40172039 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044464-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14537118
title: atopodontus_adriaensi_spades_01.fasta.gz
DOI: 10.5281/zenodo.14537119
title: atopodontus_adriaensi_spades_01.fasta.gz
DOI: 10.57780/sm1-350e86f
title: HIGHWAY SMOS L3 SIT
DOI: 10.13012/b2idb-8414089_v1
title: Data for Hot or not? An evaluation of methods for identifying hot moments of nitrous oxide emissions from soils

description: All data presented in the manuscript published in the Journal of Geophysical Research-Biogeosciences by Stuchiner et al. 2025, "Hot or not? An evaluation of methods for identifying hot moments of nitrous oxide emissions from soils." This includes hourly N2O flux measurements from 20 autochambers from May 2022 to April 2023 in a maize field in central Illinois, and various metrics used to assess hot moments that are evaluated in the manuscript. Note that chamber 5 for each sampling node is sampled from a deep soil collar (50 cm depth) that excludes roots for the purpose of measuring heterotrophic respiration rates.
DOI: 10.15468/dl.nzqbcb
title: Occurrence Download

description: A dataset containing 4125 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "TaxonKey is Lutzomyia longipalpis (Lutz & Neiva, 1912)"
 ]
}

 The dataset includes 4125 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044467-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14537162
title: bycanistes_fistulator_spades_01.fasta.gz
DOI: 10.5281/zenodo.14537163
title: bycanistes_fistulator_spades_01.fasta.gz
DOI: 10.5683/sp2/bxnres
title: Supplemental materials for: Disbudding and dehorning practices for pre-weaned dairy calves by farmers in Wisconsin, USA

description: The objective of this study was to understand common dehorning and disbudding practices in Wisconsin to better target extension education programming to encourage adoption of best practices. Data analysis plan: A survey was distributed in 2019 to Wisconsin dairy farmers and calf raisers, both online and at extension events. This data analysis plan was created prior to survey analysis as a general plan for analysis of quantitative data with regression models, and qualitative data with thematic analysis. Supplemental data: This data reflects a subset of the survey that was distributed in 2019 to Wisconsin dairy farmers and calf raisers, both online and at extension events. Supplementary qualitative data: A survey was distributed in 2019 to Wisconsin dairy farmers and calf raisers, both online and at extension events. Thematic analysis using NVivo software was performed on written responses to a number of survey questions. This document comprises additional results from two survey questions regarding disbudding and dehorning practices.
DOI: 10.5281/zenodo.14537115
title: Laser capture-microdissected islets - expression matrix

description: This file corresponds to the 260 islet gene expression matrix from GEO dataset GSE284772. Analysis pipeline can be found on GitHub.
DOI: 10.25420/britishmuseum.28071836
title: 2022SG02-0000 Project metadata

description: Metadata spreadsheet with all the metadata information for the assets uploaded in project 2022SG02 following the Material Culture Ethnography Metadata Schema (MCEMS), which was developed for the Endangered Material Knowledge Programme (EMKP). MCEMS is intended to record the metadata for digital objects that were created as part of ethnographic research recording material culture, living heritage, cultural practices, and different forms of knowledge. Its aim is to aid the preservation of ethnography-specific information, facilitate archiving for future re-use and accessibility, and increase the online findability and presence of ethnographic data and research.
DOI: 10.25420/britishmuseum.28071836.v1
title: 2022SG02-0000 Project metadata

description: Metadata spreadsheet with all the metadata information for the assets uploaded in project 2022SG02 following the Material Culture Ethnography Metadata Schema (MCEMS), which was developed for the Endangered Material Knowledge Programme (EMKP). MCEMS is intended to record the metadata for digital objects that were created as part of ethnographic research recording material culture, living heritage, cultural practices, and different forms of knowledge. Its aim is to aid the preservation of ethnography-specific information, facilitate archiving for future re-use and accessibility, and increase the online findability and presence of ethnographic data and research.
DOI: 10.6084/m9.figshare.28071833
title: <b>Intraplate Basalts in Eastern Continental China Record the Subduction History of the Pacific Plate</b>

description: This file include new major and trace element and Sr-Nd isotope data for 100-40 Ma basalts in eastern continental China (Table S1), Compiled literature data of volcanic rocks in eastern continental China since Jurassic (Table S2), and selected data with Mg<sup>#</sup> &gt; 0.6.
DOI: 10.6084/m9.figshare.28071833.v1
title: <b>Intraplate Basalts in Eastern Continental China Record the Subduction History of the Pacific Plate</b>

description: This file include new major and trace element and Sr-Nd isotope data for 100-40 Ma basalts in eastern continental China (Table S1), Compiled literature data of volcanic rocks in eastern continental China since Jurassic (Table S2), and selected data with Mg<sup>#</sup> &gt; 0.6.
DOI: 10.5281/zenodo.14344013
title: Database of internal radiation doses for the population of certain settlements in the Zhytomyr region of Ukraine

description: The database contains the internal radiation dose values for the residents of settlements, along with certain characteristics of the surveyed individuals (gender, age, education, occupation) and the natural conditions of the territory (soil types). Measurements were conducted in different years and seasons to account for weather conditions and differences in seasonal diet.
DOI: 10.5281/zenodo.14344014
title: Database of internal radiation doses for the population of certain settlements in the Zhytomyr region of Ukraine

description: The database contains the internal radiation dose values for the residents of settlements, along with certain characteristics of the surveyed individuals (gender, age, education, occupation) and the natural conditions of the territory (soil types). Measurements were conducted in different years and seasons to account for weather conditions and differences in seasonal diet.
DOI: 10.15468/dl.ynhnd4
title: Occurrence Download

description: A dataset containing 546 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phocoena sinus Norris & McFarland, 1958"
 ]
}

 The dataset includes 546 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044469-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14537219
title: boiga_barnesii_spades_01.fasta.gz
DOI: 10.5281/zenodo.14537220
title: boiga_barnesii_spades_01.fasta.gz
DOI: 10.5281/zenodo.14532759
title: Input data for 'Identifying and Quantifying Membrane Interactions of the Protein Human cis-Prenyltransferase'

description: This contains reduced data from an upcoming manscript investigating the behavior of human cis-prenyltransferase. The data is taken directly from the directory structure that contains both the simulation and analysis, with excluded trajectory files and velocity files to fit within the zenodo upload limit.The tar command used to generate the tarball carboxysome.tar.gz containing the all-atom MD input:

tar -zcvf CPTsims.tar.gz --exclude="*BAK" --exclude="*#" --exclude="*xtc" --exclude="*gro" --exclude="*trr" --exclude="*js" --exclude="*[0-9].log" --exclude="*[0-9].out" --exclude="*old" --exclude="*dcd" --exclude="*tmp" --exclude="*xst" --exclude="*edr" --exclude="*state_prev.cpt" --exclude="*.o[0-9]*" --exclude="*.mp4" --exclude="*.svg" --exclude="*.png" --exclude="*.e" --exclude="*restart*" --exclude="substrateInsertion" --exclude="startingposes" --exclude="constrained" --exclude="unconstrained" --exclude="pre-extension" --exclude="membConstrained" --exclude="startA" --exclude="quickSubInsertion" --exclude="triple" --exclude="double" --exclude="synthLigand" --exclude="*.npy" --exclude="*.npz" --exclude="core.*" --exclude="S1S2extension" --exclude="longFEPextend" --exclude="quickFEPextend"  --exclude="*.tga" --exclude="*.ppm" --exclude="startN" --exclude="SMDinsertions" --exclude="*.vel" Simulations
DOI: 10.5281/zenodo.14532760
title: Input data for 'Identifying and Quantifying Membrane Interactions of the Protein Human cis-Prenyltransferase'

description: This contains reduced data from an upcoming manscript investigating the behavior of human cis-prenyltransferase. The data is taken directly from the directory structure that contains both the simulation and analysis, with excluded trajectory files and velocity files to fit within the zenodo upload limit.The tar command used to generate the tarball carboxysome.tar.gz containing the all-atom MD input:

tar -zcvf CPTsims.tar.gz --exclude="*BAK" --exclude="*#" --exclude="*xtc" --exclude="*gro" --exclude="*trr" --exclude="*js" --exclude="*[0-9].log" --exclude="*[0-9].out" --exclude="*old" --exclude="*dcd" --exclude="*tmp" --exclude="*xst" --exclude="*edr" --exclude="*state_prev.cpt" --exclude="*.o[0-9]*" --exclude="*.mp4" --exclude="*.svg" --exclude="*.png" --exclude="*.e" --exclude="*restart*" --exclude="substrateInsertion" --exclude="startingposes" --exclude="constrained" --exclude="unconstrained" --exclude="pre-extension" --exclude="membConstrained" --exclude="startA" --exclude="quickSubInsertion" --exclude="triple" --exclude="double" --exclude="synthLigand" --exclude="*.npy" --exclude="*.npz" --exclude="core.*" --exclude="S1S2extension" --exclude="longFEPextend" --exclude="quickFEPextend"  --exclude="*.tga" --exclude="*.ppm" --exclude="startN" --exclude="SMDinsertions" --exclude="*.vel" Simulations
DOI: 10.15468/dl.46ya9h
title: Occurrence Download

description: A dataset containing 307 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-100.87411 28.40971,-100.69206 28.40971,-100.69206 28.55995,-100.87411 28.55995,-100.87411 28.40971))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 307 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044471-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zwhn9c
title: Occurrence Download

description: A dataset listing the 1350 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "GadmGid is USA.9_1",
 "Geometry POLYGON((-77.0035 38.86769,-77.00574 38.86816,-77.00879 38.86349,-77.01536 38.85922,-77.02213 38.85244,-77.02993 38.82385,-77.02918 38.81328,-77.02491 38.80941,-77.02166 38.80935,-77.01746 38.8168,-77.0159 38.82229,-77.01556 38.82812,-77.00797 38.83848,-77.00675 38.84363,-77.00689 38.84506,-77.00655 38.85048,-77.00472 38.85353,-77.00269 38.86145,-77.00235 38.86654,-77.0035 38.86769))"
 ]
}

 The dataset's 1350 records were derived from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044468-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14537217
title: I-Seed_DS12 – Data-driven flight control software
DOI: 10.5281/zenodo.14537218
title: I-Seed_DS12 – Data-driven flight control software
DOI: 10.6084/m9.figshare.28071946
title: Evolution-based protein engineering: functional switching between transthyretins and 5-hydroxyisourate hydrolases

description: Transthyretin (TTR) is a vertebrate-exclusive transport protein that plays a key role in binding and distributing thyroid hormones. However, its evolutionary origin lies in the duplication of the gene that encoding the enzyme 5-hydroxyisourate hydrolase (HIUase), which is involved in uric acid metabolism. Unlike TTR, HIUase is ubiquitous in both prokaryotes and eukaryotes, with the exception of hominids. Both HIUase and TTR subfamilies form homotetramers, possessing an internal charged cavity between the two dimer pairs. Based on their high degree of structural similarity, we hypothesized that specific <i>in silico</i> substitutions would enable the interconversion between these protein functions. Using an evolution-based approach, we engineered two putative protein sequences, where correlated locally conserved positions from one subfamily representative sequence were substituted by the other, and vice versa. Applying computational modeling techniques, the best models were refined, validated, and their cavity volumes, three-dimensional geometries, propensity to aggregation and electrostatic potentials were analyzed. Molecular dynamics simulations were performed with the reference proteins and the engineered mutants in the bound and unbound states. We demonstrate that the volumes and geometries differ from one another, due to size and physicochemical differences between their ligands. The bound state mutant complexes are stable, and the enzymatic assay demonstrated active new enzymes. Our work suggests that the evolution-based protein engineering approach used has residue-specific resolution to identify locally conserved residues in the sequence of evolutionarily related proteins, such as HIUase and TTR.
DOI: 10.6084/m9.figshare.28071946.v1
title: Evolution-based protein engineering: functional switching between transthyretins and 5-hydroxyisourate hydrolases

description: Transthyretin (TTR) is a vertebrate-exclusive transport protein that plays a key role in binding and distributing thyroid hormones. However, its evolutionary origin lies in the duplication of the gene that encoding the enzyme 5-hydroxyisourate hydrolase (HIUase), which is involved in uric acid metabolism. Unlike TTR, HIUase is ubiquitous in both prokaryotes and eukaryotes, with the exception of hominids. Both HIUase and TTR subfamilies form homotetramers, possessing an internal charged cavity between the two dimer pairs. Based on their high degree of structural similarity, we hypothesized that specific <i>in silico</i> substitutions would enable the interconversion between these protein functions. Using an evolution-based approach, we engineered two putative protein sequences, where correlated locally conserved positions from one subfamily representative sequence were substituted by the other, and vice versa. Applying computational modeling techniques, the best models were refined, validated, and their cavity volumes, three-dimensional geometries, propensity to aggregation and electrostatic potentials were analyzed. Molecular dynamics simulations were performed with the reference proteins and the engineered mutants in the bound and unbound states. We demonstrate that the volumes and geometries differ from one another, due to size and physicochemical differences between their ligands. The bound state mutant complexes are stable, and the enzymatic assay demonstrated active new enzymes. Our work suggests that the evolution-based protein engineering approach used has residue-specific resolution to identify locally conserved residues in the sequence of evolutionarily related proteins, such as HIUase and TTR.
DOI: 10.34740/kaggle/ds/6331408
title: 🐶AniMOCKery: a synthetic image dataset of mammals
DOI: 10.5281/zenodo.13881684
title: Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery - Dataset

description: Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery - Dataset

 

Dataset corresponding to https://doi.org/10.1145/3672608.3707798

This is the dataset corresponding to https://doi.org/10.1145/3672608.3707798 "Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery" with the goal of providing a systematic method to discover state-of-the-art security knowledge, focused on threats, measures, and properties from science and project literature with minimal manual effort, and providing software engineers with the awareness and means they need to apply the knowledge to their projects.

 

Structure of the files

The dataset contains the extraction prompt, the extraction results, and metadata.

- ACM_IEEE_EU_Results.zip is an archive file with the metadata and extraction results with the following folder structure: 

    - Meta/ contains the DOI, title, publication date, and pages (omitted for IEEE since it may contain intellectual property).

    - Extract/ contains extraction results generated by the LLM in response to the extraction_prompt.txt file.

    - ExtractMeta/ contains the metadata for the extraction, such as execution time.

- extraction_prompt.txt is the prompt used to extract information from the science and project publications.
DOI: 10.5281/zenodo.13881685
title: Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery - Dataset

description: Provide a systematic method to discover state-of-the-art security knowledge, focused on threats, measures, and properties from science and project literature with minimal manual effort and provide software engineers with the awareness and means they need to apply the knowledge to their projects.
DOI: 10.5281/zenodo.13926844
title: Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery - Dataset

description: Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery - Data Set

 

Dataset corresponding to https://doi.org/10.1145/3672608.3707798

This is the dataset corresponding to https://doi.org/10.1145/3672608.3707798 "Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery" with the goal of providing a systematic method to discover state-of-the-art security knowledge, focused on threats, measures, and properties from science and project literature with minimal manual effort, and providing software engineers with the awareness and means they need to apply the knowledge to their projects.

 

Structure of the files

The dataset contains the extraction prompt, the extraction results, and metadata.

- ACM_IEEE_EU_Results.zip is an archive file with the metadata and extraction results with the following folder structure: 

    - Meta/ contains the DOI, title, publication date, and pages (omitted for IEEE since it may contain intellectual property).

    - Extract/ contains extraction results generated by the LLM in response to the extraction_prompt.txt file.

    - ExtractMeta/ contains the metadata for the extraction, such as execution time.

- extraction_prompt.txt is the prompt used to extract information from the science and project publications.
DOI: 10.5281/zenodo.14427981
title: Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery - Dataset

description: Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery - Dataset

 

Dataset corresponding to https://doi.org/10.1145/3672608.3707798

This is the dataset corresponding to https://doi.org/10.1145/3672608.3707798 "Supporting Software Engineers in IT Security and Privacy through Automated Knowledge Discovery" with the goal of providing a systematic method to discover state-of-the-art security knowledge, focused on threats, measures, and properties from science and project literature with minimal manual effort, and providing software engineers with the awareness and means they need to apply the knowledge to their projects.

 

Structure of the files

The dataset contains the extraction prompt, the extraction results, and metadata.

- ACM_IEEE_EU_Results.zip is an archive file with the metadata and extraction results with the following folder structure: 

    - Meta/ contains the DOI, title, publication date, and pages (omitted for IEEE since it may contain intellectual property).

    - Extract/ contains extraction results generated by the LLM in response to the extraction_prompt.txt file.

    - ExtractMeta/ contains the metadata for the extraction, such as execution time.

- extraction_prompt.txt is the prompt used to extract information from the science and project publications.
DOI: 10.15468/dl.y4rw8s
title: Occurrence Download

description: A dataset containing 546 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phocoena sinus Norris & McFarland, 1958"
 ]
}

 The dataset includes 546 records from 26 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044472-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k3kw7d
title: Occurrence Download

description: A dataset containing 43 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Iran (Islamic Republic of)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ursus arctos Linnaeus, 1758"
 ]
}

 The dataset includes 43 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0044473-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14535062
title: SOOP TIDAL-HX01 observations conducted on board the MS Fridtjof Nansen within Island's EEZ

description: This dataset contains raw observational data collected on board the MS Fridtjof Nansen as part of the innovation platform Shaping an Ocean of Possibilities (SOOP) within the Exclusive Economic Zone of Island during the TIDAL-HX01 campaign from 16 May to 14 August 2024. The data include atmospheric and oceanic measurements obtained using various instruments:



Underway sea surface water observations: Including measurements of temperature, pCO₂, salinity, conductivity, and oxygen.Contact persons: Melf Paulsen, Tobias Steinhoff

Underway air observations: Conducted with the Portable Atmospheric Measurement Box on Sea (PAMOS), including meteorological data, aerosols, and trace gases.Contact person: Laura Köhler

Microplastic samples: Collected at various locations using filters of 300 µm, 100 µm, and 10 µm, including information on sampling locations and sampled particles.Contact person: Lars Hildebrandt

Observations with the HyperSpecBox: Including spectra and chlorophyll a data of different phytoplankton types.Contact person: Hongyan Xi

eDNA sampling locations: Information on environmental DNA sampling.Contact person: Julian Mai


Acknowledgment

We thank HX and the crew of the MS Fridtjof Nansen for their support and the opportunity to use this platform for collecting scientific data. The innovation platform Shaping an Ocean Of Possibilities for science-industry collaboration (SOOP) is funded by the Helmholtz Association.