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Videos of eMouseAtlas Models: Theiler Stage 22 (13.5-15 dpc)
No full textA number of videos for each of the eMouseAtlas 3D mouse embryo models to show the overall form and in some cases selected anatomy. Each video is identified by the unique EMA ID with annotation if required. The videos labelled as "watermovies" are captured using the OPT system with the embryo spun on a longitudinal axis with no tissue clearing
Transcriptome comparison of A. hispanicum and A. majus epidermis
No full textRaw paired end (100 bp) sequencing read from five biological samples, representing RNA extracted from two genetically identical samples of Antirrhinum hispanicum with secretory trichomes (H1 & H5) and three genetically identical individuals of Antirrhinum majus genotype JI.98 (b1-b3), which lack trichomes in leaf blades. Total RNA was extracted from peeled leaf epidermis of a different plant. Library construction, sequencing and cleaning of data (removal of low quality reads and adapter sequences) were carried out at BGI, Hong Kong.All files are zipped fastq format (Sanger, Phred33). Each biological replicate (plant) is represented as two files--'_1' and '_2'-- representing sequences from opposite ends of the same cDNA molecules. The biological replicates relate to sequence files in the following way:
A. hispanicum sample H1: V350110272_L02_68_1.fq.gz & V350110272_L02_65_2.fq.gz
A. hispanicum sample H5: V350118580_L02_14_1.fq.gz & V350118580_L02_14_2.fq.gz
A. majus sample b3: V350110272_L02_65_1.fq.gz & V350110272_L02_65_2.fq.gz
A. majus sample b4: V350118580_L02_13_1.fq.gz & V350118580_L02_13_2.fq.gz
A. majus sample b5: V350110272_L02_67_1.fq.gz & V350110272_L02_67_2.fq.g
Keywords voted on by expert panel
No full textTo identify suitable keywords relating to the interpretative frame of the 'emergency imaginary', the lead author conducted a content analysis of Craig Calhoun's work on the subject. She drew up a list of most frequently mentioned words relating to three key aspects of this interpretative frame: the definition of problem (listed in Table 1), the imperative to act swiftly (listed in Table 2) and the recommended treatment to address the problem (listed in Table 3). Next, we approached five experts, who have published extensively on humanitarian communication (Lilie Chouliaraki, Glenda Cooper, Simon Cottle, Jonathan Corpus Ong, and Matthew Powers). We asked these scholars to select and rank the words from each list that they thought were most relevant for each dimension of the emergency imaginary .This took place in 2022.
The keywords chosen by the panel in relation to each dimension were:
? The problem: "crisis", "disaster"
? The imperative to act swiftly: "now", "sudden", "urgent".
? Recommended treatment: "help", "rescue", "save".
These keywords were then used to engage in a la carte (ALC) word embedding. Specifically, we generated country-level estimates of closeness between the word "humanitarian*" and the different dimensions of the emergency imaginary. For each dimension, we computed how "close" (measured in cosine similarity) the keywords were to the word "humanitarian*."Word documen
Mouse Embryo Developmental Age Stage Selector
Full text linkMouse embryos can be staged according to a variety of criteria, the most general of which are those described by Theiler (1989). However, Theiler’s criteria are too broad to distinguish many of the important phases of early development and must therefore be supplemented by other distinguishing features. A system for staging mouse development before organogenesis has been published by Lawson and Wilson (2016). This dataset is an adaptation of this with direct links to reference models previously available on the eMouseAtlas project but are now archived in Edinburgh DataShare
Data: Extrusion Bioprinting: Meeting the Promise of the Human Tissue Biofabrication
No full textData featured in the publication - Extrusion Bioprinting: Meeting the Promise of the Human Tissue Biofabrication?
Figure 1 – Number of publications for each bioprinting classification between 2015 and 2023.
Figure 2 – Percentage of patients on transplant waiting list by tissue type and percentage of
bioprinting publications featuring those tissues.
Figure 4 - Use of materials in extrusion bioprinting
Hippocampal shape deformations in relation to cognition in The Lothian Birth Cohort 1936 – Data and Code
No full textMagnetic resonance imaging (MRI)-derived hippocampus measurements have been associated with different cognitive domains. Different morphological hippocampal shape analysis methods have been developed, but it is unclear how their principles relate and how consistent are the published results in relation to cognition in the normal elderly in the light of the new deep-learning-based state-of-the-art modelling methods. We compared results from analysing the hippocampal morphology using manually-generated binary masks and a Laplacian- based deformation shape analysis method, with those resulting from analysing SynthSeg-generated hippocampal binary masks using a deep-learning method based on the PointNet architecture, in relation to different cognitive domains, using data from The Lothian Birth Cohort 1936. Here we provide the MATLAB code used to analyse the deformations generated by the two shape deformation modelling methods, and validate and compare the results. We also provide the files with the deformity vectors for each hippocampal mesh point, and the average template meshes used in the analyses, as well as all the results from the statistical analyses.Readme_hippocampal_modelling_2024.docx
README_hippocampal_modelling_2024.pd
Ionic adsorption on bulk nanobubble interfaces and its uncertain role in diffusive stability
No full textHypothesis: Bulk nanobubbles have been proposed to improve gas exchange in a variety of applications, such as in water treatment, theragnostics, and microfluidic surface cleaning. However, there is currently no consensus regarding the mechanism responsible for their reportedly long lifetimes, which contradicts classical understanding of diffusive bubble dynamics. Recently, there has been increasing support for an electrostatic stability mechanism, following from experiments that observe negatively charged zeta potentials around nanobubbles.
Simulations: We use high-fidelity Molecular Dynamics simulations to model bulk nanobubbles under mechanical equilibrium in a sodium iodide electrolyte solution, to investigate ionic adsorption on the liquid-gas interface, and resulting zeta potential. We critically examine the hypothesised electrostatic stress underpinning this previously suggested stability mechanism, which is theorised to stabilise the nanobubbles against dissolution by counteracting the otherwise dominant effects of surface tension, however, has been too difficult to directly measure in experiments.
Findings: Ions adsorb onto the liquid-gas interface, confirming an Electric Double Layer (EDL) distribution around the nanobubble with an estimated ζ0 ∼ −10mV zeta potential, in accordance with experiments. However, we find no significant electrostatic stress exerted on the nanobubble surface, as any ion charge density in the EDL is completely neutralised by the rearrangement of the water molecules. As a result, the internal gas pressure is still well predicted by the standard Laplace pressure equation (with a fitted Tolman length correction λ = 0.31 nm), challenging an essential assumption underlying the previously proposed theories, and we instead speculate on alternative mechanisms for electrostatic-based stability
Peace Agreement Actors Dataset (PAA-X)
Full text linkDataset of peace agreement signatories, covering the primary and third parties in all non-local agreements in the PA-X Peace Agreement Database and Dataset. The dataset is provided at actor level, so that each row represents a signatory-agreement dyad, and classifies signatories as states, armed groups, international organisations, civil society organisations and other. It contains 8,211 cases of signatories to 1,689 agreements
Data Supporting the Manuscript "Evaluating tropospheric nitrogen dioxide in UKCA using OMI satellite retrievals over South and East Asia"
No full textThis dataset comprises 40 NetCDF (.nc) files, 26 Python (.py) files, and one shapefile (.shp) file. The Python scripts were utilized to generate the manuscript's (Evaluating tropospheric nitrogen dioxide in UKCA using OMI satellite retrievals over South and East Asia) results, while the NetCDF files contain post-processed outputs from the UKCA model, which were used in the result generation. The shapefile file was employed for data analysis. The UKCA model code is available at https://code.metoffice.gov.uk/trac/roses-u/browser/b/o/1/0/8/trunk Please note that these data files support the article accepted to the journal Atmospheric Chemistry and Physics. For any inquiries, please contact Alok Pandey at [email protected] or David Stevenson at [email protected]
Teaching that Matters for Migrant Students (TEAMS): Understanding Levers of Integration in Scotland, Finland and Sweden
No full textTEAMS is an international project conducted by teams of researchers from the Universities of Edinburgh, Jyväskylä, Stockholm, and Turku, led by Dr. Nataša Pantić at the University of Edinburgh and supported by the NordForsk British-Nordic research programme. This three-year project has addressed the need to understand the challenges and opportunities for schools as they respond to the increasing number of migrants in classrooms. The project used mixed methods, including social network analysis and qualitative fieldwork.
The project collected new data on teachers’ beliefs, practices and social networks, and the integration experiences of migrant students, including:
· Quantitative survey data of teachers’ social networks (n =359 (wave 1) – 416 (w2) – 341 (w3))
· Quantitative survey data on student engagement in schools (n=394 (w1) – 973 (w3))
· Online log data on teacher interaction for migrant student support (n=126(w1) – 78 (w2) – 81 (w3))
· Qualitative interview data on school staff/students’ beliefs (n=44/8(w1)–33/20(w2)–17/19(w3))
· Qualitative observations data on school staff practices and interactions (~120 h of fieldwork notes in total)
· Policy review data (~80 documents