cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7488/ds/3121
title: Experiential modulation of social dominance in a SYNGAP1 rat model of ASD

description: Data in support of the article entitled Experiential modulation of social dominance in a SYNGAP1 rat model of ASD in the European Journal of Neuroscience Advances in our understanding of developmental brain disorders such as autism spectrum disorders (ASD) are being achieved through human neurogenetics in, for example, identifying de novo mutations in SYNGAP1 as one relatively common cause of ASD. A recently developed rat line lacking the calcium/lipid binding (C2) and GTPase activation protein (GAP) domain may further help understanding the neurobiology of deficits seen in children with ASD. This study focused on social dominance in the tube test using Syngap+/Δ-GAP (rats heterozygous for the ) as alterations in social behaviour are a key facet of the human phenotype. Male animals of this line living together formed a stable intra- cage hierarchy but when living with WT cage-mates, they were submissive, modelling the social withdrawal seen in ASD, with detailed analysis of the specific behaviours shown in social interactions by dominant and submissive animals. A further suggestive observation was that when the Syngap+/Δ-GAP mutants that had been living together had dominance encounters with WT animals from other cages, the two higher ranking Syngap+/Δ-GAP rats were dominant whereas the two lower ranking mutants showed the opposite pattern of being submissive. These findings confirm earlier observations with a rat model of Fragile-X indicating that although genotype may be a major determinant of intra-cage hierarchies, the experience of winning or losing can have an influence on subsequent encounters with others. Our results highlight and model that even with single-gene mutations, dominance phenotypes reflect an interaction between genotypic and environmental factors.
DOI: 10.7488/ds/3131
title: VaxxPax: a dataset of vaccination ceasefires
title: Vaccination ceasefires dataset

description: The VaxxPax Vaccination Ceasefires Dataset is an original dataset of 74 vaccination ceasefires, covering all instances of such events reported in the media and by NGOs across the world from 1985 to 2018. The data consist of cases where a cessation of hostilities was agreed during a conflict for the purpose of, in part or in full, conducting a vaccination campaign or similarly addressing a public health need. Each event in the dataset is thus accounting for a combination of a vaccination campaign and ceasefire agreed to support it. The dataset includes cases where the cessation of hostilities was limited in terms of its duration as well as cases where it was limited in terms of its geographical scope. Our data do not include, however, cases where the health need to be addressed directly relates to the harms associated with conflict, nor those agreements relating to the broader range of activities associated with humanitarian protection or relief. Each case of ceasefire is recorded separately, such that, for example, ceasefires that took place on non-contiguous dates in connection with the same vaccination campaign are counted as distinct events. For each recorded vaccination campaign and ceasefire event, the dataset provides a best estimate of start and end dates of the ceasefire and related vaccination campaign, country in which they are implemented, conflict in which the ceasefire is agreed, illnesses for which vaccination treatment is being provided, target populations of the vaccination, and organisations involved in the vaccination campaign.
description: Dataset is found in the file named VaxxPax.csv, and as such is in a simple text format, readable as table. The codebook for the dataset is also available, in a file named codebook.pdf.
DOI: 10.7488/ds/3486
title: Views on sharing mental and physical health data among people with and without experience of mental illness
title: Satisfaction with NHS mental and physical health services in the UK

description: This dataset contains responses from an online survey of 2187 participants primarily located in the UK. All participants stated that they had used the UK National Health Service (NHS) at some time in their lives. The data were collected between December 2018 and August 2019. Participants' views on data sharing - this dataset contains information about people's willingness to share mental and physical health data for research purposes. It also includes information on willingness to share other types of data, such as financial information. The dataset includes participants' responses to questions relating to mental health data sharing, including the trustworthiness of organisations which use such data, how much the presence of different governance measures (such as deidentification, opt-out, etc.) would alter their views, and whether they would be less likely to access NHS mental health services if they knew their data might be shared with researchers. Participants' satisfaction and interaction with UK mental and physical health services - the dataset includes information regarding participants' views on and interaction with NHS services. This includes ratings of satisfaction at first contact and in the previous 12 months, frequency of use, and type of treatment received. Information about participants - the dataset includes information about participants' mental and physical health, including whether or not they have experience with specific mental health conditions, and how they would rate their mental and physical health at the time of the survey. There is also basic demographic information about the participants (e.g. age, gender, location etc.).
description: Dataset_files.txt - information relating to the documents. Open access version of survey.pdf - copy of the survey that was used to collect this dataset. Dataset_Views_on_sharing_health_data.xlsx, Data_dictionary.xlsx - dataset and data dictionary
DOI: 10.7488/ds/3790
title: Mass loss measurements for evaporation of concentrated polymer solutions

description: This dataset contains the mass loss data for the evaporation of a concentrated water/polymer solution. The data shows how for a 1 wt% mixture water/PVA the evaporation in a unidirectional geometry becomes independent of the ambient humidity. Each of the files are in Tab-Separated Values format ('.tsv') with two columns: Time; Weight measurement. The units of time are in [min], the units of mass loss are in [g].
DOI: 10.7488/ds/3122
title: Conflict resolution in Spanish bilinguals and monolinguals

description: Evidence of positive effects on nonlinguistic conflict monitoring and conflict resolution have been found in Catalan-Spanish bilinguals compared to Spanish monolinguals (Costa et al., 2009). This study partially replicated the Attentional Network Task (ANT) administered to the Catalan bilinguals on another Spanish bilingual population: Galician-Spanish bilinguals. The study tested 25 bilinguals and 18 monolinguals on two high-monitoring versions of the ANT: one with 50% of congruent trials and another with 75% congruent trials. It also introduced an English general proficiency test and a self-reported bilingual language use scale to assess foreign language proficiency and bilingual language use. The dataset includes the information from the questionnaires, the results from the LexTALE used to test English proficiency and the results from the flanker task in the ANT.
DOI: 10.7488/ds/3794
title: A study of Novec 649 fluid jets injected into sub-, trans- and super-critical thermodynamic conditions using planar laser induced fluorescence and elastic light scattering diagnostics

description: This dataset contains 4 folders that include relevant data to a study done on transcritical fluid jets within the Institute for Multiscale Thermofluids at the University of Edinburgh. Information provided varies from image and video files to tabulated data and MatLab scripts. A description of the information provided in each zipped folder has been added to facilitate finding relevant data.
DOI: 10.7488/ds/3833
title: Annotated Behaviour and Observability Dataset (ABODe)
title: Annotations of Mouse Behaviour in Videos of the Home Cage

description: This DataShare dataset pertains to behaviour classification for group-housed mice as documented in the Thesis "Automated Identification and Behaviour Classification for Modelling Social Dynamics in Group-Housed Mice" (2023) by Michael Camilleri. It grew out of a collaboration with the Mary Lyon Centre at MRC Harwell, with the need to automatically classify the behaviours of group-housed mice using only video recordings in the home-cage. The challenges include the multiple mice which must be tracked/identified and the level of occlusion. We provide herein an annotated dataset containing mouse videos, identities (by bounding boxes and ground-plate positions) and annotator labelling (by an expert animal care technician) of the individual behaviours. The dataset can be used to train and evaluate spatio-temporal activity localisation methods that classify the behaviour of each mouse at 1s intervals on extended videos. Further details are available at https://github.com/michael-camilleri/ABODe.
description: This Dataset contains three files: * Datasplits.df : pandas dataframe with information about how the data pertains to Training/Validation/Test splits (etc..) * Annotations.df : pandas dataframe with annotations * Snippets.zip : Zipped directory with raw Videos, mouse positions and Identities. For details about navigating the data, refer to https://github.com/michael-camilleri/ABODe
DOI: 10.7488/ds/3842
title: Raman spectroscopy of brain and skin tissue in minipig models of Huntington’s disease
title: Raw dataset for Downes (2015) "Raman spectroscopy of brain and skin tissue in minipig models of Huntington’s disease" In Submission.

description: The dataset originates from the application of Raman spectroscopy to brain and skin tissues from a minipig model of Huntington's diseases. Significant differences were observed between measured spectra of tissues with and without Huntington's disease, for both brain tissue and skin tissue. There are linked to changes in the chemical composition between tissue types. Using machine learning we achieved 100% separation between data sets, indicating that the test would have an accuracy of close to 100% when used as a diagnostic tool for the disease. This suggests the technique has great potential in the rapid and accurate diagnosis of Huntington's and other neurodegenerative diseases in a clinical setting. The dataset is related to the upcoming publication Kevin Tipatet, Isla Du Boulay, Hamish Muir, Liam Davison-Gates, Zdenka Ellederov and Andrew Downes (in submission), "Raman spectroscopy of brain and skin tissue in minipig models of Huntington's disease".
description: Fig2_average spectra brain skin = average spectra after processing (HD = Huntington's minipig model, and WT = wild type). Fig3_brainPCA = PCA scatter plot for brain (HD vs WT) Fig4_skinPCA= PCA scatter plot for skin (HD vs WT) Fig5_LV1andLV2 = LV scatter plot for brain and skin (HD vs WT) FigS1_WT_skin / HD_skin / WT_brain / HD_brain = all individual unprocessed spectra
DOI: 10.7488/ds/3827
title: 10 member ensemble of HadCM3 simulations

description: Numerical climate output from the HadCM3 climate model simulation runs produced for the ERC funded TITAN project covering the time period 1780-2009 . These data were produced by Andrew Schurer, using the HadCM3 climate model on the EDDIE supercomputer at the University of Edinburgh and the forcings follow the CMIP5 convention. The data is at monthly resolution and is mainly in NetDCF format. Due to a data processing error only data for 9 ensemble members exist for the AMOC and the sea ice coverage fields. The model data was first described and used in the publication: Brönnimann, S., Franke, J., Nussbaumer, S.U. et al. Last phase of the Little Ice Age forced by volcanic eruptions. Nat. Geosci. 12, 650–656 (2019). https://doi.org/10.1038/s41561-019-0402-y. And was then used in the particle filter experiments: Schurer, A. P., Hegerl, G. C., Goosse, H., Bollasina, M. A., England, M. H., Mineter, M. J., Smith, D. M., and Tett, S. F. B. (2023): Quantifying the contribution of forcing and three prominent modes of variability on historical climate, Clim. Past Discuss. And. Schurer, A., Hegerl, G. C., Goosse, H., Bollasina, M. A., England, M. H., Smith, D., & Tett, S. F. (2023). Role of multi-decadal variability of the winter North Atlantic oscillation on northern hemisphere climate. Environmental Research Letters.
DOI: 10.7488/ds/3837
title: Data from Paper: Synaptic oligomeric tau in Alzheimer's disease - a potential culprit in the spread of tau pathology through the brain

description: In Alzheimer’s disease (AD), fibrillar tau pathology accumulates and spreads through the brain and synapses are lost. Evidence from mouse models indicates that tau spreads trans-synaptically from pre- to postsynapses and that oligomeric tau is synaptotoxic, but data on synaptic tau in human brain is scarce. Here we provide data from our paper using sub-diffraction-limit microscopy to study synaptic tau accumulation in post-mortem temporal and occipital cortices of human AD and control donors. Oligomeric tau is present in both pre- and postsynaptic terminals even in areas without abundant fibrillar tau deposition. Further, there is a higher proportion of oligomeric tau compared to phosphorylated or misfolded tau found at synaptic terminals. These data suggest that accumulation of oligomeric tau in synapses is an early event in disease pathogenesis, and that tau pathology may progress through the brain via trans-synaptic spread in human disease. Thus, specifically reducing oligomeric tau at synapses may be a promising therapeutic strategy for AD. The dataset is related to the upcoming publication Colom-Cadena, M., Caitlin Davies, C., Sirisi, S., Ji-Eun, L., Simzer, E., Tzioras, M., Querol-Vilaseca, M., Sánchez-Aced, E., Ya Yin, C., Holt, K., McGeachan, R., Rose, J., Tulloch, J., Wilkins, L., Smith, C., Andrian, T., Belbin, O., Pujals, S., Horrocks, M.H., Lleó, A. and Spires-Jones, T.L., "Synaptic oligomeric tau in Alzheimer’s disease – a potential culprit in the spread of tau pathology through the brain." Neuron (in press).
DOI: 10.7488/ds/3824
title: Exploring the especial skill effect beyond fixed target sports: Assessing outcome variability in skilled golfers

description: This dataset provides the mean error scores for 10 golfers executing pitch shots to five individually-tailored distances. Data pertain to the distance and lateral error. The dataset is related to the upcoming publication Brožka, M., Coleman, S.G.S., & Carson, H.J. (in submission), 'Exploring the especial skill effect beyond fixed target sports: Assessing outcome variability in skilled golfers.'
DOI: 10.7488/ds/3835
title: Nanostring data Robertson et al. re interaction between FOXG1 and Wnt/ß-catenin signalling

description: GBM stem cells (GSCs) display phenotypic and molecular features reminiscent of normal neural stem cells, and exhibit a spectrum of cell cycle states (dormant, quiescent, proliferative). However, mechanisms controlling the transition from quiescence to proliferation in both NSCs and GSCs are poorly understood. Elevated expression of the forebrain transcription factor FOXG1 is often observed in GBM. Here, using small molecule modulators and genetic perturbations, we identify a synergistic interaction between FOXG1 and Wnt/ß-catenin signalling. Increased FOXG1 enhances Wnt-driven transcriptional targets enabling highly efficient cell-cycle re-entry from quiescence; however, neither FOXG1 nor Wnt is essential in rapidly proliferating cells. We demonstrate that FOXG1 overexpression supports gliomagenesis in vivo and that additional ß-catenin induction drives accelerated tumour growth. These data indicate that elevated FOXG1 cooperates with Wnt signalling to support the transition from quiescence to proliferation in GSCs.
description: These are the raw data files from Nanostring analysis of RNA extracted from F6 cells exposed to BMP4+FGF2 for 72 hours, then EGF+FGF2 +/- doxycycline and/or chiron for 48 hours. Samples labelled BG were exposed to EGF+FGF2 alone, samples labelled D were exposed to EGF+FGF2+Dox, samples labelled C were exposed to EGF+FGF2+Chiron, samples labelled DC were exposed to EGF+FGF2+Dox+Chiron. RNA was extracted from cells, and gDNA eliminated, using the RNeasy Mini Kit (Qiagen, 74104). The Nanostring PanCancer Pathways panel was used. Hybridization, purification and imaging on the nCounter system were conducted in accordance with manufacturers’ protocols. Triplicate samples were analysed for each condition. These are the raw data files. For anaysis, raw protein count data were processed by applying background thresholding and content normalization in NanoString nSolver 4.0. Comparisons were made, by group, to the EGF+FGF2 alone condition.
DOI: 10.7488/ds/3834
title: Supporting material for "The effect of uncertainties in natural forcing records on simulated temperature during the last Millennium"

description: Data and code to reproduce the figures for: The effect of uncertainties in natural forcing records on simulated temperature during the last Millennium. Luecke et al., 2023. Please use the citation of the original journal publication when referring to this study. Abstract: Here we investigate how uncertainties in the solar and volcanic forcing records of the past millennium affect the large-scale temperature response, using a 2-box impulse response model. We use different published solar forcing records and present a new volcanic forcing ensemble which accounts for random uncertainties in eruption dating and sulfur injection amount. The simulations are compared to proxy reconstructions from PAGES 2k and Northern hemispheric tree-ring data. We find that low solar forcing is most consistent with all the proxy reconstructions, even when accounting for volcanic uncertainty and that the residuals are well in line with CMIP6 control variability at centennial timescales. Volcanic forcing uncertainty induces a significant spread in the temperature response, especially at periods of peak forcing. For individual eruptions and superposed epoch analyses volcanic uncertainty can strongly affect the agreement with proxy reconstructions, and may explain previous proxy-model discrepancies.
DOI: 10.7488/ds/3829
title: Particle filter HadCM3 simulation

description: Numerical climate output from the HadCM3 climate model simulation runs produced for the ERC funded TITAN project covering the time period 1780-2009 using a particle-filter data-assimilation approach. These data were produced by Andrew Schurer, using the HadCM3 climate model on the EDDIE supercomputer at the University of Edinburgh and the forcings follow the CMIP5 convention. These simulations investigate the role of three modes of climate variability, the North Atlantic Oscillation, El-Niño Southern Oscillation and the Southern Annular Mode, as pacemakers of climate variability since 1781, evaluating where their evolution masks or enhances forced climate trends. We use particle filter data assimilation to constrain the observed variability in a global climate model without nudging, producing a near free running model simulation with the time-evolution of these modes similar to those observed. Since the climate model also contains external forcings, these simulations, in combination with model experiments with identical forcing but no assimilation, can be used to compare the forced response to the effect of the three modes assimilated, and evaluate to what extent these are confounded with the forced response. A description of this dataset can be found in: Schurer, A.P., Hegerl, G.C., Goosse, Bollasina, M.A., England, M.H., Mineter, M.J., Smith, D.M., and Tett, S.F.B. (2022). Quantifying the contribution of forcing and three prominent modes of variability on historical climate. Climate of the Past Discussions, 1-25 - doi.org/10.5194/cp-2022-55.
DOI: 10.7488/ds/3839
title: The Cost of Stochastic Resetting

description: Resetting a stochastic process has been shown to expedite the completion time of some complex task, such as finding a target for the first time. Here we consider the cost of resetting by associating a cost to each reset, which is a function of the distance travelled during the reset event. We compute the Laplace transform of the joint probability of first passage time $t_f$, number of resets $N$ and resetting cost $C$, and use this to study the statistics of the total cost. We show that in the limit of zero resetting rate the mean cost is finite for a linear cost function, vanishes for a sub-linear cost function and diverges for a super-linear cost function. This result contrasts with the case of no resetting where the cost is always zero. For the case of an exponentially increasing cost function we show that the mean cost diverges at a finite resetting rate. We explain this by showing that the distribution of the cost has a power-law tail with continuously varying exponent that depends on the resetting rate. The dataset is related to the upcoming paper John C. Sunil, Richard A. Blythe, Martin R. Evans and Satya N. Majumdar (in submission), 'The Cost of Stochastic Resetting'.
DOI: 10.7488/ds/3161
title: A Systems-Level Analysis of Total-Body PET Data Reveals Complex Skeletal Metabolism Networks in vivo

description: Bone is now regarded to be a key regulator of a number of metabolic processes, in addition to the regulation of mineral metabolism. However, our understanding of complex bone metabolic interactions at a systems level remains rudimentary. In vitro molecular biology and bioinformatics approaches have frequently been used to understand the mechanistic changes underlying disease at the cell level, however, these approaches lack the capability to interrogate dynamic multi-bone metabolic interactions in vivo. Here we present a novel and integrative approach to understand complex bone metabolic interactions in vivo using total-body positron emission tomography (PET) network analysis of murine 18F-FDG scans, as a biomarker of glucose metabolism in bones. In this report we show that different bones within the skeleton have a unique glucose metabolism and form a complex metabolic network, which could not be identified using single tissue simplistic PET standard uptake values analysis. The application of our approach could reveal new physiological and pathological tissue interactions beyond skeletal metabolism, due to PET radiotracers diversity and the advent of clinical total-body PET systems. Karla J. Suchacki, Carlos J. Alcaide-Corral, Samah Nimale, Mark G. Macaskill, Roland H. Stimson, Colin Farquharson, Tom C. Freeman and Adriana A. S. Tavares