cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7488/ds/3473
title: Density and temperature controlled fluid extraction in a bacterial biofilm is determined by poly-gamma-glutamic acid production

description: A hallmark of microbial biofilms is the self-production of extracellular matrix that encases the cells resident within the community. The matrix provides protection from the environment, while spatial heterogeneity of expression influences the structural morphology and colony spreading dynamics. Bacillus subtilis is a model bacterial system used to uncover the regulatory pathways and key building blocks required for biofilm growth and development. Previous reports have suggested that poly-gamma-glutamic acid (PGA) production is suppressed during biofilm formation and does not play a major role in biofilm morphology of the undomesticated isolate NCIB 3610. In this work we report on the observation of multiple travelling fronts that develop during the early stage of B. subtilis colony biofilm formation. We find the emergence of a highly motile population of bacteria that is facilitated by the extraction of fluid from the underlying agar substrate. Motility develops behind a moving front of fluid that propagates from the boundary of the biofilm towards the interior. The extent of proliferation is strongly modulated by the presence of extracellular polysaccharides (EPS). We trace the origin of this moving front of fluid to the production of PGA. We find that PGA production is correlated with higher temperatures, resulting in a mature biofilm morphology that is distinct from the biofilm architecture typically associated with B. subtilis. Our results suggest that B. subtilis NCIB 3610 produces distinct biofilm matrices in response to environmental conditions.
description: DataDescription.xlsx
DOI: 10.7488/ds/3463
title: Edinburgh EIT Dataset

description: This dataset is for publication "Structure-Aware Dual-Branch Network for Electrical Impedance Tomography in Cell Culture Imaging", and "Hybrid Learning-Based Cell Aggregate Imaging With Miniature Electrical Impedance Tomography". ABSTRACT: Electrical impedance tomography (EIT) is an emerging imaging modality to monitor 3D cell culture dynamics through reconstructing the electrical properties of cell clusters. Recently, machine-learning (ML)-based approaches have achieved significant gains for the image reconstruction of EIT against conventional physical model-based methods. However, continuous, multilevel conductivity distributions, which commonly exists in cell culture imaging, are more rigorous to reconstruct and remains challenging. This study aims to tackle this challenge by proposing a structure-aware dual-branch deep-learning method to predict both structure distribution and conductivity values. The proposed network comprises two independent branches to encode the structure and conductivity features, respectively. The two branches are jointed later to make final predictions of conductivity distributions. Numerical and experimental evaluation results demonstrate the superior performance of the proposed method in dealing with the multilevel, continuous conductivity reconstruction problem.
DOI: 10.7488/ds/3466
title: Frequency distribution of cytokine and associated transcription factor single nucleotide polymorphisms in Zimbabweans: impact on schistosome infection and cytokine levels
title: Host Genetic Susceptibility to Urogenital Schistosomiasis

description: This dataset contains demographic, parasitological, immunological, and single nucleotide polymorphism (SNP) data from 850 Zimbabwean individuals participating in a longitudinal study of urogenital schistosomiasis (S. haematobium) infection. Individuals from an S. haematobium-endemic region were genotyped for 35 SNPs across genes encoding cytokines and associated transcription factors, and the role of these SNPs in modulating susceptibility to S. haematobium infection and cytokine production was analysed.
DOI: 10.7488/ds/3464
title: Edinburgh mfEIT Dataset

description: This dataset is for publication "MMV-Net: A Multiple Measurement Vector Network for Multifrequency Electrical Impedance Tomography". ABSTRACT: Multifrequency electrical impedance tomography (mfEIT) is an emerging biomedical imaging modality to reveal frequency-dependent conductivity distributions in biomedical applications. Conventional model-based image reconstruction methods suffer from low spatial resolution, unconstrained frequency correlation, and high computational cost. Deep learning has been extensively applied in solving the EIT inverse problem in biomedical and industrial process imaging. However, most existing learning-based approaches deal with the single-frequency setup, which is inefficient and ineffective when extended to the multifrequency setup. This article presents a multiple measurement vector (MMV) model-based learning algorithm named MMV-Net to solve the mfEIT image reconstruction problem. MMV-Net considers the correlations between mfEIT images and unfolds the update steps of the Alternating Direction Method of Multipliers for the MMV problem (MMV-ADMM). The nonlinear shrinkage operator associated with the weighted l2,1 regularization term of MMV-ADMM is generalized in MMV-Net with a cascade of a Spatial Self-Attention module and a Convolutional Long Short-Term Memory (ConvLSTM) module to better capture intrafrequency and interfrequency dependencies. The proposed MMV-Net was validated on our Edinburgh mfEIT Dataset and a series of comprehensive experiments. The results show superior image quality, convergence performance, noise robustness, and computational efficiency against the conventional MMV-ADMM and the state-of-the-art deep learning methods.
DOI: 10.7488/ds/3467
title: Use of a novel flipped classroom intervention to increase medical students’ knowledge of physical activity guidelines

description: Background and Aims: It is important medical students, as tomorrow’s doctors, have knowledge of physical activity (PA) guidelines. Previous data suggests only 14.9% of medical students knew adult PA guidelines. This study aimed to assess how a novel flipped classroom intervention impacted undergraduate medical students’ knowledge of PA guidelines and their confidence applying these in clinical practice. Methods and Results: This study utilised a prospective repeat measures quantitative design to evaluate the educational intervention. Survey results of the intervention group were compared to the comparison group. 45% of students who received the intervention knew adult guidelines, compared to 12% of students who did not receive the intervention (χ²(2, N = 244) = 33.07, p &lt; 0.001). 39% of the intervention group knew child guidelines, compared to 20% who did not receive the intervention (χ²(2, N = 244) = 10.59, p = 0.001). The intervention group felt more confident in PA training and asked for less PA training in the future. Conclusion: The results suggest a flipped classroom intervention had a positive impact on medical students’ knowledge of PA guidelines, and confidence in PA training. Further research is required to assess longer-term impacts of this teaching and follow-up the same year group pre- and post-intervention.
DOI: 10.7488/ds/3074
title: Uganda Road Data for Travel Time Maps

description: This .shp file is a polyline shapefile containing the roads data in Uganda that was used to create the Uganda cost allocation/friction surfaces. The data are a combination (merged) of Open Street Map roads data and MapwithAi project roads data.
description: AllRoads.shp - polyline shapefile containing the roads that have been merged from two source data sets (1) Open street map roads and (2) facebook map with AI project roads.
DOI: 10.5281/zenodo.7871679
title: Codes_of_BTP_report

description: This is the work I have done in my BTP.
DOI: 10.7488/ds/3077
title: Tanzania Road Data for Travel Time Maps

description: A polyline data set of roads used for estimating travel time in Tanzania. The roads have been merged from two source datatsets.
description: TZ_OSM_road_merge_complete.shp - road shapefile containing merged OSM roads and Facebook MapwithAI roads
DOI: 10.7488/ds/3085
title: Uganda Travel Time to nearest Level III health centre Map Ouput
title: Childrens travel time to nearest Level III health centres in Uganda

description: A 20 m spatial resolution geotiff of travel time to level III health facilities in Uganda. Level III facilities typically have Qualified nurses, Nurse aids and Clinical officers (physicians assistants) present withing them. The services that Level III facilities typically provide are; Basic laboratory services, Maternity care, Inpatient care. The data was generated using the Child Poverty and Access to Services (CPAS) software (10.5281/zenodo.4638563) and was created as part of the CPAS project within the Data for Children Collaborative. The travel time is calculated assuming walking speeds and has been reduced by 22% to reflect the fact that children do not walk as fast adults. A full description will be available in a paper that has been submitted for review.
description: To produce this dataset required the following input data: ESA Sentinel-2 CCI Landcover Prototype Land Cover 20 m Map of Africa 2016 http://2016africalandcover20m.esrin.esa.int/ Open Street Map Vector Polyline Shapefile of Uganda Roads https://data.maptiler.com/downloads/africa/uganda/ Shuttle Radar Topography Mission (SRTM) Digitial Elevation Model (DEM) – 30 m Mosaic available from RCMRD Geoportal http://geoportal.rcmrd.org/layers/?limit=100&offset=0&title__icontains=Uganda%20SRTM%2030%20Meters MapwithAI Uganda Roads https://github.com/facebookmicrosites/Open-Mapping-At-Facebook/wiki/Available-Countries Health Facility locations from Maina et al. 2019 doi: 10.1038/s41597-019-0142 These data are also available here on Edinburgh Data Share as per the requirements for Scientific Data paper submissions
DOI: 10.5281/zenodo.7871678
title: Codes_of_BTP_report

description: This is the work I have done in my BTP.
DOI: 10.7488/ds/3076
title: Mozambique Land Cover Data for Cost Surface estimation

description: The ESA CCI Landcover20-m Map for Africa Geotiff file containing 9 land cover types. This was used to create the cost allocation surfaces for the CPAS project. This data set was downloaded from the ESA data portal and then clipped to Mozambique. It is not available elsewhere at the Mozambique level.
description: Sentinel2_LULC.tif - A geotiff land cover map of land cover in Mozambique. Containing 9 land cover types: Trees Shrubs Grassland Cropland Often Flooded Sparse Vegetation Bare Areas Built Up Open Water No Data
DOI: 10.7488/ds/3075
title: Mozambique Road Data for Travel Time Maps

description: A polyline shapefile dataset containing roads merged from two source datasets (1) Open street map and (2) MapwithAI project. Used in the creation of travel time estimates in mozambique
description: all_roads.shp - polyline shapefile of merged OSM roads and Facebook MapwithAI roads datasets.
DOI: 10.7488/ds/3078
title: Uganda Travel Time to nearest Level IV health centre Map Output

description: A 20 m spatial resolution geotiff of travel time to level IV health facilities in Uganda. Level IV facilities typically have Qualified nurses, Nurse aids, Clinical officers (physicians assistants) and Doctors (not all will have doctors) present within them. The services that Level IV facilities typically provide are; laboratory services, operations, maternity care, Inpatient care. The data was generated using the Child Poverty and Access to Services (CPAS) software (10.5281/zenodo.4638563) and was created as part of the CPAS project within the Data for Children Collaborative. The travel time is calculated assuming walking speeds and has been reduced by 22% to reflect the fact that children do not walk as fast adults. A full description will be available in a paper that has been submitted for review.
DOI: 10.7488/ds/3073
title: Uganda 20 m cost allocation surfaces for the travel time maps

description: 20 m resolution cost allocation or friction surface data for Uganda. This data was created using the CPAS software (10.5281/zenodo.4638563). There are two surfaces here, one with water masked to prevent travel across open water and one with water unmasked allowing for travel across water bodies. These data are used in combination with facilitiy location data to estimate the travel maps using a least cost path method. A manuscript detailing this is being prepared and this description will be updated once it has been published.
DOI: 10.7488/ds/3080
title: Zimbabwe Road Data for Travel Time Maps

description: A polyline shapefile of roads in Zimbabwe used for estimating travel times. It was merged from two source datasets (1) Open street map roads and (2) MapwithAI roads.
description: OSM_rds_merg.shp - Polyline shapefile merged road data containing OSM roads and MapwithAi roads.
DOI: 10.7488/ds/3084
title: Uganda Travel Time to any health facility Map Ouput
title: Childrens travel time to health facilities in Uganda

description: A 20 m spatial resolution geotiff of travel time to health facilities in Uganda. The data was generated using the Child Poverty and Access to Services (CPAS) software (10.5281/zenodo.4638563) and was created as part of the CPAS project within the Data for Children Collaborative. The travel time is calculated assuming walking speeds and has been reduced by 22% to reflect the fact that children do not walk as fast adults. A full description will be available in a paper that has been submitted for review.
description: To produce this dataset required the following input data: ESA Sentinel-2 CCI Landcover Prototype Land Cover 20 m Map of Africa 2016 http://2016africalandcover20m.esrin.esa.int/ Open Street Map Vector Polyline Shapefile of Uganda Roads https://data.maptiler.com/downloads/africa/uganda/ Shuttle Radar Topography Mission (SRTM) Digitial Elevation Model (DEM) – 30 m Mosaic available from RCMRD Geoportal http://geoportal.rcmrd.org/layers/?limit=100&offset=0&title__icontains=Uganda%20SRTM%2030%20Meters MapwithAI Uganda Roads https://github.com/facebookmicrosites/Open-Mapping-At-Facebook/wiki/Available-Countries Health Facility locations from Maina et al. 2019 doi: 10.1038/s41597-019-0142 These data are also available here on Edinburgh Data Share as per the requirements for Scientific Data paper submissions
DOI: 10.7488/ds/3478
title: Characteristics of sprays produced by coaxial non-swirling and swirling air-water jets with high aerodynamic Weber numbers

description: The dataset includes POD results and the droplet size and velocity distributions.
DOI: 10.7488/ds/3081
title: Zimbabwe Travel Time to nearest hospital Map Output

description: A 20 m spatial resolution geotiff of travel time to the nearest hospital in Zimbabwe. Hospitals here included mission hospitals, district hospitrals and provincial hospitals, these facilities all have medical doctors present and offer refeeral services from primary health care, can attend to emergencie and provincial hospitals can offer specialist health care. The data was generated using the Child Poverty and Access to Services (CPAS) software (10.5281/zenodo.4638563) and was created as part of the CPAS project within the Data for Children Collaborative. The travel time is calculated assuming walking speeds and has been reduced by 22% to reflect the fact that children do not walk as fast adults. A full description will be available in a paper that has been submitted for review.
description: service_area_Zim_hosp.tif - 20-m geotiff file of travel time in seconds from each pixel to the nearest hospital in Zimbabwe. Travel_time_district_rural_hospital.jpg - a jpeg image of the service_area_Zim_hosp.tif showing how it should look when downloaded.
DOI: 10.7488/ds/3079
title: Zimbabwe Travel Time to the nearest health clinic Map Output

description: Travel_time_rural_health_centres.jpg (311.6Kb) - jpeg image of the geotiff file to indicate how the map should look once loaded. service_area_Zim_clinics.tif (11.56Gb) - geotiff with 20 m spatial resolution for whole of Zimbabwe that shows the the travel speed in seconds from every pixel to the nearest health clinic. data was created using WGS84 geographic projection which might need specifying when opening for the first time.
DOI: 10.7488/ds/3460
title: InfoBC Discrete Choice Experiment Data
title: More to living than being alive: Patient trade-offs between overall survival and side-effects in the treatment of metastatic breast cancer

description: The data describes the responses of 113 self identified patient respondents for a discrete choice experiment investigating trade-offs between hypothetical treatments. A pending abstract for the paper is included below. Background: There has been a recent proliferation in treatment options for patients with metastatic breast cancer. Discussions surrounding treatment often involve trade-offs between overall survival and side-effects. Understanding patient preferences for such trade-offs can support shared decision-making. Methods: We designed a discrete choice experiment (DCE) to look at patient trade-offs between overall survival and side-effects which impact quality of life when choosing between treatments for metastatic breast cancer. Treatment attributes were fatigue, nausea, diarrhoea, other side-effects (peripheral neuropathy, hand foot syndrome, and mucositis), urgent hospital admission and overall survival (annual probability of survival). Responses were analysed using a multinomial logit model and willingness to trade overall survival for improvements in side-effects was estimated. Results: 113 respondents participated, including 72 metastatic breast cancer patients and 33 primary breast cancer patients. Whilst overall survival was highly important respondents demonstrated a willingness to trade overall survival for reductions in Grade 2 side-effects. Respondents were willing to give up the greatest survival to avoid Grade 2 side-effects relative to no side-effects: firstly, hand foot syndrome (10.66%), then mucositis (9.80%), peripheral neuropathy (9.20%), and finally diarrhoea (6.14%). Grade 1 side-effects were not significant, suggesting respondents were willing to tolerate them and unwilling to forgo any survival benefits to avoid them. Risk of urgent hospital admission was not significant. Conclusion: Patient trade-offs can form a baseline for discussion in the doctor-patient consultation, helping to move towards a process of shared decision-making.
DOI: 10.7488/ds/3452
title: The influence of vegetation cover on the grain-size distributions and thicknesses of two Icelandic tephra layers

description: This dataset accompanies the paper of the same title. Grain-size distributions and thicknesses of tephra layers are used to reconstruct characteristics, dynamics and hazards of explosive volcanic eruptions, but the extent to which the preservation of tephra is influenced by depositional environments is unclear. This paper analyses grain-size distributions and thicknesses of tephra layers produced by the Eyjafjallajökull (2010) and Grímsvötn (2011) eruptions. We collected 110 tephra samples and layer thickness measurements from 86 sites at two locations in southern Iceland. Areas of different vegetation cover have varying capacities to affect rates of tephra erosion, retain fallout or capture remobilised tephra. The G2011 tephra was somewhat coarser-grained and thicker in areas of birch woodland than in adjacent moss heath, but no comparable differences in the Ey2010 tephra were observed. The spatial variability (over tens of metres) of median particle-size and layer thickness is low, providing confidence that relatively few samples and measurements may be required to capture fallout characteristics.
description: Morison_and_Streeter_2022_binned_volumes_of_tephra_samples.csv Morison_and_Streeter_2022_key_metrics_of_tephra_samples.csv Morison_and_Streeter_2022_accompanying_metadata_for_repository.docx
DOI: 10.7488/ds/3479
title: British Lop Pig genotypes

description: This dataset contains genotypes for 190 British Lop Pig samples genotyped with the Illumina PorcineSNP60v2 BeadChip, comprising 61,565 Single Nucleotide Polymorphisms (SNPs) spread throughout the entire genome. Genotypes are reported according to the Forward strand in the 10.2 Porcine assembly, but map positions were updated to the Sus Scrofa assembly 11.1. This data is generated in collaboration with the British Lop Pig Society and Scotland's Rural College (SRUC).
description: Genotypes are presented in PLINK format, consisting of three files. The file .bed contains the genotypes in binary format. The file .bim contains the map information (according to Sus scrofa 11.1 assembly) and is accessible as a text file. The file .fam contains the information about the animals and is accessible as a text file. For privacy, real names of animals have been masked.
DOI: 10.7488/ds/3470
title: Supplementary information and model inputs/outputs for "Quantifying vertical borehole heat exchanger sustainability from a geothermal resource perspective in the UK."
title: Constraining the thermal footprint of heat extraction from a vertical borehole heat exchanger to guide sustainable utilisation of shallow geothermal resources in the UK.

description: This dataset contains supplementary informations (Supplementary_Material.txt) as well as the models input and output files relevant to the investigation of the subsurface thermal footprint induced by heat extraction from a borehole heat exchanger (BHE) in the UK. Low-temperature geothermal energy is seen as a renewable resource that could contribute to the decarbonization of residential heating in the UK. Here, we constrain the potential of the sub-surface to provide the heating requirements to a single-family house via a vertical Borehole Heat Exchanger. Using a combination of analytical and numerical models, we calculate the heat balance and show that only geothermal flux can significantly contribute to the replenishment of stored heat, but only provides &lt;5% of the yearly average heat demand. Under most designs, the heat mining resulting from the lack of natural recharge causes the continuous expansion of the thermal footprint over time at an average rate of 18 m²/yr over 30 years. Hence, artificial heat recharge is essential to guarantee the sustainability of the resource in areas of low heat flow and limit the areal impact of heat mining. This must be included as a key element in the design of a regulatory framework for resilient long term sustainable geothermal resources. Simulations were run using the OpenGeoSys finite-element numerical modelling software, whose executable 'ogs.exe' is provided in this dataset.
DOI: 10.7488/ds/3454
title: Systematic Review of Interventions to Influence Children's Career Aspirations

description: This dataset includes files related to a systematic review of intervention studies designed to influence the career aspirations of children (aged 5-18). These files cover the literature sources and inclusion criteria used in the review, the search terms used in the review, records of the studies screened, and textual summaries and descriptive statistics pertaining to the included studies' objectives, participants, context, methodology, and intervention content.
description: Files associated with this item include: a document describing the literature sources and inclusion criteria used in the review; a document detailing the search terms used in the review; a document specifying the studies screened; a document with textual summaries pertaining to the included studies' objectives, participants, context, methodology, and intervention content; and a spreadsheet with descriptive statistics related to the review.