cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.15749638
title: Input Files for "Extending OpenMC Validation to Spent Fuel Canisters: A Criticality Benchmark Against MCNP"

description: This dataset contains OpenMC and MCNP input files for one of the benchmark cases presented in the article *"Extending OpenMC Validation to Spent Fuel Canisters: A Criticality Benchmark Against MCNP"*. The selected case represents the 'Normal operation' configuration, which locates a spent nuclear fuel canister in a borehole within a tunnel, based on the KBS-3 concept.

The objective of this release is to support reproducibility and encourage transparent research in neutron transport simulations applied to radioactive waste management.

The files were originally prepared by Javier Ruiz-Pineda as part of his undergraduate thesis research. Jaime Romero-Barrientos, his academic advisor, is the corresponding author of the associated article. Both authors are affiliated with the Chilean Nuclear Energy Commission (CCHEN).

Benchmark results using OpenMC and MCNP are included in the README file.

**Embargo Notice**:  

This dataset is currently under embargo and will be made publicly available upon acceptance of the associated article. In the meantime, it can be accessed upon reasonable request. Please contact the corresponding author:

- Jaime Romero-Barrientos  - Email: jaime.romero@cchen.cl
DOI: 10.5281/zenodo.10201226
title: Lantana camara L. (Verbenaceae) invasion effects on soil physicochemical properties in Ethiopian highland plateau ecosystems
DOI: 10.5281/zenodo.17220350
title: Geothermal Maturity Scoring data

description: The dataset is related to the article "Mapping the regulatory and technical conditions for geothermal DHC systems across the EU". Data collected is regarding the technological maturity indicators of selected DHC systems in the EU and Public support data composed of Regulatory and Support indicators sourced from the Report: Overview of District Heating and Cooling Markets and Regulatory Frameworks under the Revised Renewable Energy Directive (Tractebel & Artelys, 2021). Based in the Technological Maturity and Public Support data the geothermal maturity scores are built for the DHC cases.
DOI: 10.5281/zenodo.15643890
title: Genetic Counselling practices in European oncology MDTs

description: This project aims to explore the integration, roles, and perceived value of genetic counselling in oncology care across different European healthcare settings. Your input will help us better understand how genetic counselling is currently practiced and how it is viewed by professionals working in Multidisciplinary Teams (MDTs). This will contribute to shaping more informed, context-sensitive recommendations for service development and policy. Genetic counselling is a structured and patient-centred process that helps individuals and families understand and adapt to the medical, psychological, and familial implications of genetic conditions. In oncology, this typically includes assessing hereditary cancer risk, supporting informed decision-making around genetic testing, and discussing implications for treatment, surveillance, and at-risk relatives. The process is typically delivered by professionals with specialised training, guided by recognised standards of care. In addition to supporting patients, genetic counsellors may also contribute to MDTs by facilitating communication around genetic information, coordinating testing pathways, and helping integrate genetic considerations into clinical decision-making. In Europe, the professional practice of genetic counsellors is overseen by the European Board of Medical Genetics (EBMG), which sets certification standards and promotes harmonised training and regulatory frameworks across countries.Across Europe, however, the legislation, organisation, delivery, and perceived role of genetic counselling vary considerably. In some settings, it is fully integrated into MDTs and valued as a key part of patient care. In others, it may be provided in different ways or viewed as overlapping with existing roles. Understanding this diversity - including both its benefits and limitations - is one of the aspects this survey aims to explore. 

The project is coordinated by the Vall d’Hebron Institute of Oncology (VHIO) and the Catalan Institute of Oncology (ICO) and is conducted as part of the Master's in Genetic Counselling at the Universitat Autònoma de Barcelona (UAB).
DOI: 10.5281/zenodo.15045283
title: Ichthyoplankton data in the São Marcos bay
DOI: 10.5281/zenodo.15537323
title: Functional traits and species occurrence modelling across Macaronesian archipelagos

description: This dataset accompanies the manuscript "The Role of Functional Traits in Structuring Fish Assemblages Across the Macaronesian Archipelagos". It provides all necessary data and scripts to reproduce the analyses presented in the study, which investigated how functional traits shape the taxonomic and functional diversity of coastal fish species across four Atlantic archipelagos: Azores, Madeira, Canary Islands, and Cabo Verde.

The dataset includes:





Species occurrence data (occ_traits.xlsx): presence and functional attributes of fish species at each site.




Functional traits matrix (traits.xlsx): traits used for statistical modelling.




Site-level abundance data (sites.xlsx): species-by-site matrix for diversity analysis.




Trait matrix for functional diversity (traits_fd.xlsx) and site matrix (sites_fd.xlsx): input for computing FRic, FEve, FDiv, FDis, RaoQ indices.




R script (macaronesia_fish_diversity_pipeline.R): complete code for data loading, GLM fitting, functional diversity analysis, and visualisation (e.g. chord and UpSet plots).




README file (README_updated.md): instructions for running the pipeline.



All scripts were written in R (version ≥ 4.2) and rely on open-source packages. This resource enables full reproducibility of the modelling workflow, figures, and tables, and supports further applications in marine functional biogeography and conservation planning.
DOI: 10.5281/zenodo.15499522
title: Discrepancies in Biomarker Identification in Peak-Picking Strategies in Untargeted Metabolomics Analyses of Cells, Tissues, and Biofluids

description: Different software and algorithms are available for peak picking in nontargeted metabolomics and each may have its own strengths and limitations. The choice of pick picking method can significantly influence the results obtained, including the number and identity of metabolites detected, their quantification, and subsequent biomarker analysis. The impact of peak picking by different tools in an untargeted metabolomics-based biomarker study is largely understated. This study compares two popular open-source software tools for peak picking in untargeted metabolomics of cancer cells, tissues, and bio-fluids: XCMS and MZmine 2. The investigation evaluates the impact of these peak-picking algorithms on biomarker identification after careful noise filtering by blank feature filtering (BFF). We found significant discrepancy between the results obtained from XCMS and MZmine 2, regardless of the sample types, solvent gradient phases, retention time (RT), or mass-to-charge ratio (m/z) tolerances used. Notably, this study revealed significant disagreement between peak picking tools in the context of metabolite-based biomarker study after BFF and highlights the importance of carefully evaluating and selecting appropriate peak picking tools to ensure reliable and accurate results in untargeted metabolomics research.
DOI: 10.5281/zenodo.17106980
title: Input Files for "Extending OpenMC Validation to Spent Fuel Canisters: A Criticality Benchmark Against MCNP"

description: # Input Files for "Extending OpenMC Validation to Spent Fuel Canisters: A Criticality Benchmark Against MCNP"

**Author:** J. Ruiz-Pineda  **Corresponding author:** Jaime Romero-Barrientos  **E-mail:** jaime.romero@cchen.cl  **ORCID:** [0000-0002-3256-8181](https://orcid.org/0000-0002-3256-8181)

## Description

This dataset contains the input files used in the article _"Extending OpenMC Validation to Spent Fuel Canisters: A Criticality Benchmark Against MCNP"_.  The intention of sharing these files is to promote transparent research practices and facilitate reproducibility and benchmarking efforts in the nuclear simulation community.

## Case Description

The included input files correspond to the "Normal Operation" environment. This configuration models a spent fuel canister placed in a borehole drilled into a tunnel, following the KBS-3 concept similar to that used by Posiva Oy. The fuel modeled corresponds to pressurized water reactor (PWR) spent nuclear fuel.  Cell, material, and surface definitions were aligned across OpenMC and MCNP to the extent allowed by each code.

## Files Included

- OpenMC input files:  - `settings.xml`  - `geometry.xml`  - `materials.xml`  - `NormalOperation_SpentFuel_mcnp` – MCNP input file- `isotopic_composition_v1.0.0.pdf` - List of isotopes for the Spent and Fresh fuel used in the simulations.

## Simulation Parameters

- 50,000 particles per batch  - 3,000 total batches  - 300 inactive batches

## Results

- **OpenMC**:  *k_eff* = 0.19556 ± 0.00002  - **MCNP**:   *k_eff* = 0.19588 ± 0.00002

## Code Versions

- OpenMC (TD) version 2.1  - MCNP version 6.1

## Nuclear Data Library

- ENDF/B-VIII.0

## License

This dataset is distributed under the [Creative Commons Attribution 4.0 International (CC BY 4.0)](https://creativecommons.org/licenses/by/4.0/) license.

## Embargo Notice  

This dataset is currently under embargo and will be made publicly available upon acceptance of the associated article. In the meantime, it can be accessed upon reasonable request. Please contact the corresponding author:

- Jaime Romero-Barrientos  - Email: jaime.romero@cchen.cl

For any questions or further information, please contact the corresponding author.
DOI: 10.5281/zenodo.17479290
title: Impact of Canopy Openness in Soil Nutrients.

description: This dataset contains field measurements of canopy openness, soil nutrient concentrations collected from sub tropical forest plots. It supports the analyses presented in the main manuscript.
DOI: 10.5281/zenodo.17479289
title: Impact of Canopy Openness in Soil Nutrients.

description: This dataset contains field measurements of canopy openness, soil nutrient concentrations collected from sub tropical forest plots. It supports the analyses presented in the main manuscript.
DOI: 10.5281/zenodo.15631126
title: Main Dataset for Canopy Openness and Forest Regeneration Study

description: This dataset contains field measurements of canopy openness, seedling regeneration metrics, collected from sub tropical forest plots. It supports the analyses presented in the main manuscript.
DOI: 10.5281/zenodo.15631125
title: Main Dataset for Canopy Openness and Forest Regeneration Study

description: This dataset contains field measurements of canopy openness, seedling regeneration metrics, collected from sub tropical forest plots. It supports the analyses presented in the main manuscript.
DOI: 10.16904/envidat.636
title: Urban birds point counts data

description: The study area included the cities of Basel, Lugano and Zurich. The sampling design reflected four main city districts related to four categories of tree cover (Figure 1): 1) industrial/commercial areas, 0-20% tree cover; 2) residential areas, 20-40% tree cover; 3) urban parks and cemeteries, 40-60% tree cover; 4) peri-urban forests (natural/semi-natural forests), 60-100% tree cover. The tree cover gradient was evaluated across a square grid with a square side length of 100 m. For each square, we evaluated the area covered by urban trees using the Urban Atlas Street Tree Layer 2018 (European Union’s Copernicus Land Monitoring Service information, 2021). 
In each city, we established eight transects of 1.2 km, two for each tree cover category. Transects crossed contiguous grid squares belonging to the same tree cover categories as much as possible. We performed aural-visual point counts of birds every 200 m along each transect (six points per transect) during the breeding season (April-June 2024) (Bibby et al., 2000). The transects were walked at the time of highest activity of birds, which is from thirty minutes after sunrise until 4 hours later. Each transect was walked twice, 20-60 days apart, to account for imperfect detection of birds and sample completeness (Balestrieri et al., 2017; Kéry et al., 2005).
description: Resource Title: Urban_Birds_point_counts_data.xlsx
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 Description:
DOI: 10.16904/envidat.638
title: Urban bird predation on horse chestnut leaf miner Cameraria ohridella in three Swiss cities

description: We established our study sites in the cities of Basel, Lugano and Zurich. We characterised urban tree cover of each city using a rectangular grid with squares of 100x100 m. Within each square, we measured the area covered by urban trees using the European Union's Copernicus Land Monitoring Service information, Urban Atlas Street Tree Layer 2018 [https://doi.org/10.2909/205691b3-7ae9-41dd-abf1-1fbf60d72c8c](https://doi.org/10.2909/205691b3-7ae9-41dd-abf1-1fbf60d72c8c). 
Then we assigned each square to three categories of urban tree cover that roughly represented the main types of urban uses:
1) low cover, industrial/commercial areas, 0-20% tree cover;
2) intermediate cover, residential areas, 20-40% tree cover;
3) high cover, urban parks and cemeteries, 40-60% tree cover.
-br/--br/-
We measured bird predation rate on the non-native insect larvae of the horse chestnut leaf miner (HCLM) Cameraria ohridella, an invasive moth that lays eggs and completes its larval and pupal development stages within the leaves of the horse chestnut Aesculus hippocastanus. The larvae feed on leaf fluids and tissue while creating mines within the leaf, which ultimately results in early leaf browning and loss of photosynthetic activity. We collected roughly ten twigs from each tree, including five twigs from the inner and five from the outer crown. Each twig carried 2-4 leaves, for a total of 3408 leaflets. Leaves were stored for ~10 weeks in a refrigerated room at 4 degrees C. We checked all HCLM mines using a stereo microscope and distinguished among open and close mines.
Open mines were further divided based on the opening hole, whether it was a small round exit hole of the larva or the parasitoid, or an irregularly shaped, large bird predation hole.
description: Resource Title: Urban_Birds_predation_HCLM.xlsx
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 Description:
description: Resource Title: Urban_Birds_predation_HCLM.xlsx
 Size: 838540 bytes
 Format: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
 URL: https://www.envidat.ch/dataset/529759b5-c550-42b9-94e1-b982afcebfb9/resource/ed64e814-87d3-4166-bad2-6da29fc75b7a/download/urban_birds_predation_hclm.xlsx
 Description:
DOI: 10.16904/envidat.637
title: Urban bird predation on artificial caterpillars

description: We established our study sites in the cities of Basel, Lugano and Zurich, and their peri-urban forests. We characterised urban tree cover of each city using a rectangular grid with squares of 100x100 m. Within each square, we measured the area covered by urban trees using the European Union's Copernicus Land Monitoring Service information, Urban Atlas Street Tree Layer 2018 [https://doi.org/10.2909/205691b3-7ae9-41dd-abf1-1fbf60d72c8c](https://doi.org/10.2909/205691b3-7ae9-41dd-abf1-1fbf60d72c8c).
Then we assigned each square to four categories of urban tree cover that roughly represented the main types of urban uses:
1) low cover, industrial/commercial areas, 0-20% tree cover;
2) intermediate cover, residential areas, 20-40% tree cover;
3) high cover, urban parks and cemeteries, 40-60% tree cover;
4) peri-urban forests (natural/semi-natural forests), 60-100% tree cover. 
-br/--br/-
Our study sites consisted of eight 1.2 km-long transects in each city, equally distributed across the four tree cover categories. We designed an experimental measurements of bird predation rate on herbivore insect larvae using artificial caterpillars. They mimicked a variety of common, cryptically-coloured herbivorous species, which are usually preyed by birds. We designed caterpillars with green water-resistant modelling clay (Staedtler Noris®), 4-6 cm long and approximately 0.5 cm wide. Caterpillars were threaded to a thin (Ø = 0.6 mm) zinc-plated iron wire and tethered to branches of trees or bushes at a height up to 2 m from the ground. We placed 2-4 caterpillar mimics every 200 m along each transect (five points per transect) or, when not possible due to absence of suitable branches, within 200 m from the point.
In total, we placed 270 caterpillar mimics at 115 points during the late breeding season (June-July 2023). Caterpillar mimics were checked after 10-14 days and replaced with new ones at new locations within 10 m from the previous ones. During each of the two visits, we counted the number of bird predation marks.
description: Resource Title: Urban_Birds_predation_artificial_caterpillars.xlsx
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 URL: https://www.envidat.ch/dataset/31872bde-1935-4368-b1be-84512baa2d7f/resource/4cb89bbd-50a9-41a3-b76e-10c38b877fcd/download/urban_birds_predation_artificial_caterpillars.xlsx
 Description:
DOI: 10.16904/envidat.639
title: Urban bird capture data with prey species and fungal community

description: We captured birds in urban parks and peri-urban forests in the cities of Lugano and Zurich. The urban sites were located in an urban forest (Lugano) and in a cemetery (Zurich), and the bird assemblages were comparable with those of the surrounding forests.
We captured individual birds during sessions lasting multiple days using mist-nets, concentrating the activities within 3-4 hours after sunrise and before sunset. We extracted birds from nets using single-use nitrile gloves and gently wiped their body parts with a dry foam swab MW940 (Medical Wire & Equipment), which was then placed in a screw-capped tube (2 ml), which was previously filled with 1 ml ethanol puriss. (Sigma-Aldrich) under sterile conditions.Then, we marked each bird with an alphanumeric leg band, identified the species, determined the sex and age whenever possible, measured for relevant biometrics (e.g. wing chord), the amount of body fat and pectoral muscle (i.e. body condition), and weighed.
Afterwards, we placed each bird in a disposable paper bag within a cotton bag that ensured respiration and left it for few minutes in a safe and calm place to allow for defecation and the collection of faecal samples. The faecal sample was collected from insectivorous and omnivorous birds, and few granivorous birds that are known to occasionally eat invertebrates, such as the house sparrow Passer domesticus.
After releasing the bird, we stored the faecal sample in a screw-capped tube (2 ml), which was previously filled with 1 ml ethanol puriss. (Sigma-Aldrich) under sterile conditions. We wore single-use nitrile gloves and used sterile toothpicks to collect solid samples. The tubes were initially stored in the refrigerator during the field campaign and no later than seven days after collection at -20°C until prepared for DNA extraction.
DNA extraction and library preparation was performed at WSL Phytopathology facilites, Sequencing was performed at Lausanne Genomic Technologies Facility (University of Lausanne; [https://wp.unil.ch/gtf/](https://wp.unil.ch/gtf/)) on an AVITI benchtop sequencing system (Element Biosciences). Bioinformatics was performed at the Genetic Diversity Center (ETH Zurich) using a custom pipeline.
description: Resource Title: Urban_birds_capture_data.xlsx
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 Description: Data tables including individual bird data with biometry, prey species from faecal samples, and fungi species from swab samples.
DOI: 10.16904/envidat.644
title: Soil microbial diversity and multifunctionality across European biomes

description: The diversity and network complexity of prokaryotic and fungal communities and their relationships with soil multifunctionality (SMF) – an integrative index for C-, N- and P-cycling functions – was investigated along a 3,000-km latitudinal transect across Europe (37° to 62°N), spanning biomes from Mediterranean drylands, temperate to boreal forests.
description: Resource Title: Han_et_al_GCB_2025.xlsx
 Size: 41152 bytes
 Format: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
 URL: https://www.envidat.ch/dataset/81f8917a-95b6-45c3-a6bb-3385eaf8dddf/resource/2df1e8b4-e021-4d64-85b0-ba2c325986f1/download/han_et_al_gcb_2025.xlsx
 Description: Metadata, soil properties and soil microbial functions for each sites across the European gradient.
description: Resource Title: 16S_Han et al_EUgradient.xlsx
 Size: 1592467 bytes
 Format: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
 URL: https://www.envidat.ch/dataset/81f8917a-95b6-45c3-a6bb-3385eaf8dddf/resource/f90ec77d-30a1-4e2f-a763-688f7f011013/download/16s_han-et-al_eugradient.xlsx
 Description: Diversity of prokaryotes (16S gene sequencing) containing: 1) ASV (Amplicon Sequence Variants) table: abundance of ASV in each sample and 2) Taxonomy table: taxonomic classification of each ASV.
description: Resource Title: ITS_Han et al_EUgradient.xlsx
 Size: 1132688 bytes
 Format: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
 URL: https://www.envidat.ch/dataset/81f8917a-95b6-45c3-a6bb-3385eaf8dddf/resource/36dfe0f2-3d72-4ba8-ae37-48185214682a/download/its_han-et-al_eugradient.xlsx
 Description: Diversity of fungi (ITS region sequencing) containing: 1) ASV (Amplicon Sequence Variants) table: abundance of ASV in each sample and 2) Taxonomy table: taxonomic classification of each ASV.
DOI: 10.16904/envidat.640
title: Stable isotope data from 73 tree and shrub species in a common garden in Basel Switzerland

description: This dataset contains hydrogen and carbon isotope data from 73 tree and shrub species grown in a common garden (Kannenfeldpark) in Basel, Switzerland. Leaf and twig samples were collected in August 2019. The isotope measurements cover various organic compounds, including sugars, cellulose, and (lignin) methoxy groups, as well as leaf and twig xylem water. Details on sample preparation and isotope analysis are provided in Schuler et al. (2023) for carbohydrates and water, and in Wieland et al. (in review) for methoxy groups.
description: Resource Title: Basel_2020_Isotopes.xlsx
 Size: 35827 bytes
 Format: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet
 URL: https://www.envidat.ch/dataset/c1a25add-5409-48af-a130-2529f2968541/resource/55dabcdb-c31c-4737-99f0-43234090efca/download/basel_2020_isotopes_envidat.xlsx
 Description: The resource contains a metadata sheet explaning the variables, as well as a sheet with the actual species and isotope data.