cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24798789.v1
title: <b>Foredune-forming grass and plant diversity show contrasting responses along the southeastern United States coast after hurricane disturbance</b>

description: This dataset presents plant percentage cover by species, average plant cover and species richness for sites along the foredune area of sites distributed between Cape Canaveral (Florida) and Tybee Island (Georgia), USA. Plant cover by species was sampled on three occasions using 0.5 x 0.5m quadrats distributed along 3 transects at up to 28 sites. Observations were conducted in February 2018, July 2018, January 2019, and July 2019. The coastline was impacted by Hurricane Irma in October 2017 and the data were collected to look at plant composition in coastal foredunes undergoing recovery from the hurricane. The data were collected as part of NERC grant NE/R016593/1, Resilience of a coastal ecosystem following hurricane Irma.
DOI: 10.6084/m9.figshare.24166314
title: Data for paper "Restricted dispersal and inbreeding in a high-elevation bird across the ‘sky islands’ of the European Alps" (Journal of Biogeography)

description: This dataset includes all the data used for fitting in R the maximum likelihood population effects models reported in the paper "Restricted dispersal and inbreeding in a high-elevation bird across the ‘sky islands’ of the European Alps": the matrix of individuals genetic distances (gendistances_all.csv), raster files connected to different hypotheses of landscape effect on dispersal (resistance_MN.asc, isolation_MN.asc, constant_asc.asc, null_asc.asc), coordinates for each sample (MN_coord_all.txt), and R script for MLPE models (MLPE_script.txt). The same files are provided also to fit the same models on a reduced dataset where first-degree relationships involving juveniles were removed (gendistances_unrelated_ad.csv, MN_coord_unrelated_ad.txt, MLPE_script_filtered_dataset.txt). Data are provided also for the species distribution models reported in the study, i.e., the snowfinch occurrence data used in the models (snowfinch_data_cleaned.csv) as well as training and testing datasets (SWD_white_winged_snowfinch_training.RDS and SWD_white_winged_snowfinch_testing.RDS).
DOI: 10.21335/nmdc-164661753
title: Marine CO2 and inorganic nutrients: Torungen-Hirtshals section 2022

description: Marine CO2 system data (total alkalinity, and total dissolved inorganic carbon) were collected from full water column on the IMR repeated Torungen-Hirtshals section in the Skagerrak. Sampling were performed on cruise onboard RV G. M. Dannevig in April 2022 (cruise# 2022305) and November 2022 (cruise# 2022317).
DOI: 10.48420/23283998
title: TriTan: An efficient triple non-negative matrix factorisation method for integrative analysis of single-cell multiomics datarevision.zip contains tutorial and benchmark datasets

description: Three multiple publicly available single-cell multi-modal (two modalities - RNA and ATAC) datasets of varying sizes to comprehensively benchmark TriTan against other methods and leverage the output from TriTan for extensive downstream analyses. 
 PBMC-10K: Human peripheral blood mononuclear cells of 10X Multiome from(https://www.10xgenomics.com/resources/datasets/pbmc-from-a-healthy-donor-granulocytes-removed-through-cell-sorting-10-k-1-standard-1-0-0) .  pbmc10k.h5mu : .h5mu data with two modalities; PBMC-10K-celltype.txt: ground truth cell type labels.
 Bone marrow mononuclear cells (NeurIPS 2021 ) of 10X Multiome from GSE194122. GSE194122.zip contains prepocessed .h5mu data as well as ground truth.
 Mouse skin cells using SHARE-seq protocol from GSM4156597. The .zip data contains prepocessed and unprepossed scRNA-seq and scATAC-seq data.;  GSM4156597_skin_celltype.txt:ground truth cell type labels.

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DOI: 10.48420/23283998.v1
title: TriTan: An efficient triple non-negative matrix factorisation method for integrative analysis of single-cell multiomics data

description: Three multiple publicly available single-cell multi-modal (two modalities - RNA and ATAC) datasets of varying sizes to comprehensively benchmark TriTan against other methods and leverage the output from TriTan for extensive downstream analyses. 
 PBMC-10K: Human peripheral blood mononuclear cells of 10X Multiome from(https://www.10xgenomics.com/resources/datasets/pbmc-from-a-healthy-donor-granulocytes-removed-through-cell-sorting-10-k-1-standard-1-0-0) .  pbmc10k.h5mu : .h5mu data with two modalities; PBMC-10K-celltype.txt: ground truth cell type labels.
 Bone marrow mononuclear cells (NeurIPS 2021 ) of 10X Multiome from GSE194122. GSE194122.zip contains prepocessed .h5mu data as well as ground truth.
 Mouse skin cells using SHARE-seq protocol from GSM4156597. The .zip data contains prepocessed and unprepossed scRNA-seq and scATAC-seq data.;  GSM4156597_skin_celltype.txt:ground truth cell type labels.

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DOI: 10.5281/zenodo.10370344
title: Energy-Dependent, Self-Adaptive Mesh h(p)-Refinement of an Interior-Penalty Scheme for a Discontinuous Galerkin Isogeometric Analysis Spatial Discretisation of the Multi-Group Neutron Diffusion Equation with Dual-Weighted Residual Error Measures

description: This repository holds all of the raw data generated by my (Modern) Fortran code for a paper "Energy-Dependent, Self-Adaptive Mesh h(p)-Refinement of an Interior-Penalty Scheme for a Discontinuous Galerkin Isogeometric Analysis Spatial Discretisation of the Multi-Group Neutron Diffusion Equation with Dual-Weighted Residual Error Measures".
The (Modern) Fortran code solves the multi-group neutron diffusion equation using a novel IGA-based spatial discretisations.
DOI: 10.5281/zenodo.10370345
title: Energy-Dependent, Self-Adaptive Mesh h(p)-Refinement of an Interior-Penalty Scheme for a Discontinuous Galerkin Isogeometric Analysis Spatial Discretisation of the Multi-Group Neutron Diffusion Equation with Dual-Weighted Residual Error Measures

description: This repository holds all of the raw data generated by my (Modern) Fortran code for a paper "Energy-Dependent, Self-Adaptive Mesh h(p)-Refinement of an Interior-Penalty Scheme for a Discontinuous Galerkin Isogeometric Analysis Spatial Discretisation of the Multi-Group Neutron Diffusion Equation with Dual-Weighted Residual Error Measures".
The (Modern) Fortran code solves the multi-group neutron diffusion equation using a novel IGA-based spatial discretisations.
DOI: 10.6084/m9.figshare.24798852.v1
title: Supplementary Table 2

description: List of mutations identified, their positions,date of location of identification in our dataset and their frequency
DOI: 10.5281/zenodo.7751724
title: Contact data of older adults (70+) in the Netherlands in 2021

description: SCONE (Studying CONtacts of Elderly): Contact data of frail and non-frail older adults (70+) collected in the Netherlands during two survey periods in 2021
description: The SCONE (Studying Contacts in Elderly) project was funded by the ZonMw (NL) programme Infectious Disease Control 3,  project number 10150511910020
DOI: 10.5281/zenodo.7649375
title: Contact data of older adults (70+) in the Netherlands in 2021

description: SCONE (Studying CONtacts of Elderly): Contact data of frail and non-frail older adults (70+) collected in the Netherlands during two survey periods in 2021
description: The SCONE (Studying Contacts in Elderly) project was funded by the ZonMw (NL) programme Infectious Disease Control 3,  project number 10150511910020
DOI: 10.5281/zenodo.7649376
title: Contact data of older adults (70+) in the Netherlands in 2021

description: SCONE (Studying CONtacts of Elderly): Contact data of frail and non-frail older adults (70+) collected in the Netherlands during two survey periods in 2021
description: The SCONE (Studying Contacts in Elderly) project was funded by the ZonMw (NL) programme Infectious Disease Control 3, project number 10150511910020
DOI: 10.24378/exe.683
title: Size dimorphism and sexual segregation in pheasants: tests of three competing hypotheses (dataset)

description: Fine scale sexual segregation outside of the mating season is common in sexually dimorphic and polygamous species, particularly in ungulates. A number of hypotheses predict sexual segregation but these are often contradictory with no agreement as to a common cause, perhaps because they are species specific. We explicitly tested three of these hypotheses which are commonly linked by a dependence on sexual dimorphism for animals which exhibit fine-scale sexual segregation; the Predation Risk Hypothesis, the Forage Selection Hypothesis, and the Activity Budget Hypothesis, in a single system the pheasant, Phasianus colchicus; a large, sedentary bird that is predominantly terrestrial and therefore analogous to ungulates rather than many avian species which sexually segregate. Over four years we reared 2,400 individually tagged pheasants from one day old and after a period of 8–10 weeks we released them into the wild. We then followed the birds for 7 months, during the period that they sexually segregate, determined their fate and collected behavioural and morphological measures pertinent to the hypotheses. Pheasants are sexually dimorphic during the entire period that they sexually segregate in the wild; males are larger than females in both body size and gut measurements. However, this did not influence predation risk and predation rates (as predicted by the Predation Risk Hypothesis), diet choice (as predicted by the Forage Selection Hypothesis), or the amount of time spent foraging, resting or walking (as predicted by the Activity Budget Hypothesis). We conclude that adult sexual size dimorphism is not responsible for sexual segregation in the pheasant in the wild. Instead, we consider that segregation may be mediated by other, perhaps social, factors. We highlight the importance of studies on a wide range of taxa to help further the knowledge of sexual segregation.
description: This is the dataset used for the Whiteside et al. (2018) article "Size dimorphism and sexual segregation in pheasants: tests of three competing hypotheses".
description: The article incorporates analysis from a large number of datasets over several years to answer a series of question. Each spreadsheet has data for a specific question or set of questions. For each question I have clearly documented the factors that went into the analysis in the article and these factors are labelled at the top of each column on the dataset.
description: The article associated with this dataset is located in ORE at: http://hdl.handle.net/10871/34195
DOI: 10.24378/exe.1923
title: Code to digitise MR bone images and calculate properties of shape: cross-sectional area, area moment of inertia, product moment of area

description: This version supersedes the previous version in ORE at https://doi.org/10.24378/exe.1763
description: Updated code to digitise MR image of bone and calculate properties of shape: cross-sectional area, area moment of inertia and product moment of area. Import jpeg of MR image of bone cropped to the region of interest. Basic image processing and edge detection to digitise bone. Align bone and find coordinates of anterior, posterior, medial and lateral points. Calculate properties of digitised shape in m, m^2, m^4. Outputs include area moment of inertia approximation [Ix, Iy], product moment of area approximation, cross sectional area approximation. A sample image file (jpeg) and processing steps document (pdf) are included. The code is named 'Bone_digitisation' and requires the deposited function 'triangle_approximation_function' for use.
description: This version supersedes the previous version in ORE at https://doi.org/10.24378/exe.1763
DOI: 10.24378/exe.1143
title: Assessing the impact of peat erosion on growing season CO2 fluxes by comparing erosional peat pans and surrounding vegetated haggs (dataset)

description: This is the dataset used for the Gatis et al. (2019) article "Assessing the impact of peat erosion on growing season CO2 fluxes by comparing erosional peat pans and surrounding vegetated haggs" published in Wetlands Ecology and Management.
description: Net ecosystem exchange measurements collected using closed chamber technique with shade cloths from both vegetated haggs and peat pans. Outputs (ecosystem respiration and photosynthesis) from hyperbolic light response curves. Below ground heterotrophic and total below ground respiration measurements from vegetated haggs using closed chamber tequniques. Seasonal NEE models. All in Microsoft Excel.
description: The article associated with this dataset is located in ORE at: http://hdl.handle.net/10871/36793
DOI: 10.24378/exe.1463
title: Giving pork the chop: Response inhibition training to reduce meat intake (dataset)

description: This is the raw data (from online surveys) and processed data for the article "Giving pork the chop: Response inhibition training to reduce meat intake" published in Appetite.
description: Variable names are explained in the SPSS file.
description: The article associated with this dataset is in ORE at http://hdl.handle.net/10871/37403
DOI: 10.24378/exe.183
title: An experimental investigation of a novel iron chelating protoporphyrin IX prodrug for the enhancement of photodynamic therapy (dataset)

description: Objectives: Non-melanoma skin cancers are the most frequently occurring type of cancer worldwide. They can be effectively treated using topical dermatological photodynamic therapy (PDT) employing protoporphyrin IX (PpIX) as the active photosensitising agent as long as the disease remains superficial. Novel iron chelating agents are being investigated to enhance the effectiveness and extend the applications of this treatment modality, as limiting free iron increases the accumulation of PpIX available for light activation and thus cell kill. Methods: Human lung fibroblasts (MRC-5) and epithelial squamous carcinoma (A431) cells were treated with PpIX precursors (aminolaevulinic acid (ALA) or methyl-aminolevulinate (MAL)) with or without the separate hydroxypyridinone iron chelating agent (CP94) or alternatively, the new combined iron chelator and PpIX producing agent, AP2-18. PpIX fluorescence was monitored hourly for 6 hours prior to irradiation. PDT effectiveness was then assessed the following day using the lactate dehydrogenase and neutral red assays. Results: Generally, iron chelation achieved via CP94 or AP2-18 administration significantly increased PpIX fluorescence. ALA was more effective as a PpIX-prodrug than MAL in A431 cells, corresponding with the lower PpIX accumulation observed with the latter congener in this cell type. Addition of either iron chelating agent consistently increased PpIX accumulation but did not always convey an extra beneficial effect on PpIX-PDT cell kill when using the already highly effective higher dose of ALA. However, these adjuvants were highly beneficial in the skin cancer cells when compared with MAL administration alone. AP2-18 was also at least as effective as CP94 + ALA/MAL co-administration throughout and significantly better than CP94 supplementation at increasing PpIX fluorescence in MRC5 cells as well as at lower doses where PpIX accumulation was observed to be more limited. Conclusions: PpIX fluorescence levels, as well as PDT cell kill effects on irradiation can be significantly increased by pyridinone iron chelation, either via the addition of CP94 to the administration of a PpIX precursor or alternatively via the newly synthesised combined PpIX prodrug and siderophore, AP2-18. The effect of the latter compound appears to be at least equivalent to, if not better than, the separate administration of its constituent parts, particularly when employing MAL to destroy skin cancer cells. AP2-18 therefore warrants further detailed analysis, as it may have the potential to improve dermatological PDT outcomes in applications currently requiring enhancement.
description: The article associated with this dataset is located in ORE at: http://hdl.handle.net/10871/31567
DOI: 10.24378/exe.1084
title: The functional importance of human foot muscles for bipedal locomotion (dataset)

description: Human feet have evolved to facilitate bipedal locomotion, losing an opposable digit that grasped branches in favor of a longitudinal arch (LA) that stiffens the foot and aids bipedal gait. Passive elastic structures are credited with supporting the LA, but recent evidence suggests that plantar intrinsic muscles (PIMs) within the foot actively contribute to foot stiffness. To test the functional significance of the PIMs, we compared foot and lower limb mechanics with and without a tibial nerve block that prevented contraction of these muscles. Comparisons were made during controlled limb loading, walking, and running in healthy humans. An inability to activate the PIMs caused slightly greater compression of the LA when controlled loads were applied to the lower limb by a linear actuator. However, when greater loads were experienced during ground contact in walking and running, the stiffness of the LA was not altered by the block, indicating that the PIMs’ contribution to LA stiffness is minimal, probably because of their small size. With the PIMs blocked, the distal joints of the foot could not be stiffened sufficiently to provide normal push-off against the ground during late stance. This led to an increase in stride rate and compensatory power generated by the hip musculature, but no increase in themetabolic cost of transport. The results reveal that the PIMs have a minimal effect on the stiffness of the LA when absorbing high loads, but help stiffen the distal foot to aid push-off against the ground when walking or running bipedally.
description: Dataset to accompany the Farris et al. (2019) article "The functional importance of human foot muscles for bipedal locomotion" published in the Proceedings of the National Academy of Sciences of the USA.
description: The .mat file is a matlab data file containing summaries of all the relevant mechanical data. The structure of the data is explained in the .m file which is a text file created in the matlab script editor. Excel (.xlsx) files containing summaries of metabolic cost of transport data, and m-wave recruitment curve data are also included
description: The article associated with this dataset is located in ORE at: http://hdl.handle.net/10871/35540
DOI: 10.24378/exe.943
title: Fipronil pesticide as a suspect in historical mass mortalities of honey bees (dataset)

description: This is the dataset used for the Holder et al. (2018) article "Fipronil pesticide as a suspect in historical mass mortalities of honey bees" published in PNAS.
description: Feeding and longevity endpoints for laboratory exposures of caged honey bees to various dietary pesticides. Each spreadsheet contains the results from experimental dietary exposures of caged honey bees to various toxicants. A spreadsheet contains either the data on survivorship or daily consumption of feed (syrup) and a detailed description of data layout is provided on the first worksheet of each spreadsheet.
description: The article associated with this dataset is located in ORE at: http://hdl.handle.net/10871/35463
DOI: 10.5281/zenodo.10362902
title: Data for the article "Capacitive coupling of coherent quantum phase slip qubits to a resonator"

description: Zip file containing data for the article "Capacitive coupling of coherent quantum phase slip qubits to a resonator" published in the New Journal of Physics. The data used in the figures and tables are saved in separate txt files.
DOI: 10.5281/zenodo.10362901
title: Data for the article "Capacitive coupling of coherent quantum phase slip qubits to a resonator"

description: Zip file containing data for the article "Capacitive coupling of coherent quantum phase slip qubits to a resonator" published in the New Journal of Physics. The data used in the figures and tables are saved in separate txt files.
DOI: 10.5281/zenodo.10370419
title: Makers a les Aules 21-22-23 Dataset containing responses to pre and post-test

description: The dataset includes data from three editions (2021, 2022, 2023) of the Makers a les Aules project. Anonymised data containing responses to the pre-test and post-test. This dataset contains the necessary details to reproduce the experiments of the paper 'Gender differences in engineering self-efficacy among undergraduate students: exploring the impact of Design Thinking, Maker Education, and Project-based Learning'(under review)
Thanks for your interest in our Makers a les Aules dataset. Please read this PDF with Data Sharing Terms (link) complete the following information and send access request.
DOI: 10.5281/zenodo.10370418
title: Makers a les Aules 21-22-23 Dataset containing responses to pre and post-test

description: The dataset includes data from three editions (2021, 2022, 2023) of the Makers a les Aules project. Anonymised data containing responses to the pre-test and post-test. This dataset contains the necessary details to reproduce the experiments of the paper 'Gender differences in engineering self-efficacy among undergraduate students: exploring the impact of Design Thinking, Maker Education, and Project-based Learning'(under review)
Thanks for your interest in our Makers a les Aules dataset. Please read this PDF with Data Sharing Terms (link) complete the following information and send access request.
DOI: 10.6084/m9.figshare.24798852
title: Supplementary Table 2

description: List of mutations identified, their positions,date of location of identification in our dataset and their frequency
DOI: 10.58116/uek/tria6f
title: Replication Data for: Social Interactions and Attitudes towards Remote Learning

description: The dataset includes findings on the impact of social interaction in remote classes on the effectiveness of online learning and students' attitudes toward remote education during the Covid-19 pandemic, part of a broader research project that examines the benefits, challenges and expectations of remote education during the pandemic. The research conducted, the collected data and the analysis of the results formed the basis for formulating practical recommendations and conclusions that may be important for teachers, e-course designers and educational authorities.
DOI: 10.5282/ubm/data.423
title: Not all toxins are the same: Dataset and Analysis

description: Existing data sets annotating toxins include proteins and toxic peptides. They include bacterial, animal, and plant toxins (classified by source organism). Often, they other proteins associated with toxins , even though they do not have toxic effect. Here, we present a manually curated data set of bacterial proteins acting as toxins, called exotoxins, along with a curated data set of animal toxins and two control sets for non-toxic secreted proteins from animals and bacteria. Toxins in our data set were selected based on reports of secretion, and their ability to directly target and/or disrupt molecular mechanisms essential for the survival of the host organism. We compared simple biophysical features such as protein length, isoelectric point and amino acid composition to their secreted non toxic counterpart, and between the kingdoms. While both animal and bacterial toxins use more cysteines than their control, animal had an additional over-representation in cysteines. In addition, we found animal toxins to be substantially shorter on average than bacterial toxins and had their isoelectric point shifted more toward acidic pH values. Overall, the differences in biophysical features between animal and bacterial toxins suggest to keep the two sets distinct.