302 Works

Evaluation of the Clinical Efficacy of Cine CMR Texture Analysis in Myocardial Quantification

Ping Tie
Recently, researchers have reported the potential value of CMR texture, especially for evaluation of ischemic and non-ischemic cardiomyopathy. However, these studies were mostly based on more advanced CMR sequences, and focused on myocardial disease at a later stage. Just one paper reports the application of TA using conventional CINE CMR sequences, and only one paper mentions healthy population myocardial TA with a small cohort. There are three main aims of this thesis. Firstly, to explore...

Thermo-mechanical behaviour of thermo-active diaphragm walls

Andrew Minto
Thermo-active geo-structures are becoming more common as a renewable energy solution that both reduces carbon emissions and reduces the whole-life cost of building and civil infrastructure projects. These structures have an added benefit, which is that the additional cost to install is relatively small since the geo-structure is already required for structural stability. Thermo-active geo-structures can significantly reduce CO2 emissions from building and civil infrastructure and can have a significant impact on the Government’s attempts...

Investigating the Effect of Cytokines on the Proliferation and Metabolism of Intraepithelial Lymphocytes

Nicole Salgado Fernandez
The gut is exposed constantly to invading bacterial populations and dietary antigens. To protect it from harm, a complex and diverse network of patrolling immune cells can be found spread throughout the gut and in specialized lymphoid structures. One immune cells type playing a key role in the protection and homeostasis of the gut, are the intraepithelial T-lymphocytes (IELs). This population of T cells, reside within the epithelial layer of the gut and are primarily...

Work related stress and wellbeing in critical care nurses and their relationship with patient safety

Carol Louise McCallum
Background: In the United Kingdom 2,460 per 100,000 nurses reported high work stress (Health & Safety Executive, 2020). The prevalence of work stress in critical care nurses (CCNs) is unknown. Despite a large literature base, the causes, and consequences of CCN work stress cannot be determined. Little is known of the effects of CCN work stress on patient outcomes. Methods: Phase I explored the work-related stress literature and identified measures to capture work-related stress and...

Charting the Digital Lifespan Work Package 1 Interview Guides: Digital Experience at Life Transitions 2

Kathryn Orzech & Wendy Moncur
This file includes the interview guides from the EPSRC-funded Charting the Digital Lifespan project [PI: Moncur. EPSRC Reference EP/L00383X/1]. This project investigated digital personhood and digital experience at the life transitions of leaving secondary school, becoming a parent, and retiring from work in the UK. This file contains three Interview guides, used to structure interviews with individuals at each life transition point. The guides set out questions and also notes (including types of internet activity...

Centrifuge test data - Influence of initial stress distribution on liquefaction induced settlement of shallow foundations

Daniele Bertalot & Andrew Brennan
The files are databases in Matlab format (.mat files). - Each file contains processed instrument readings relative to a given centrifuge test. Three datasets are given, relative to centrifuge test BD5, BD7 and BD8 respectively. - Each dataset consists of three variables: ACC (accelerometers readings), PPT (Pore Pressure Transducers readings), LVDT (Linear Variable Differential Transducers readings). - variable ACC consists of a matrix of 15 columns: first column represents the reference time vector, while columns...

Combined GWAS of metaformin glycaemic reponse in 1372 GoDARTS patients

Kaixin Zhou
This dataset includes the GWAS screening results that were used to the supplementary Figure 1 in the paper “Variation in the Glucose Transporter gene SLC2A2 is associated with glycaemic response to metformin” by Zhou et al. in Nature Genetics. Brief descriptions of the 12 columns in this file are in the following table. Column Descriptions SNP SNP identifier CHR Chromosome BP Base pair (NCBI build 36) EFFECT_ALLELE The effect allele NMISS Number of subjects in...

Whole Genome Sequencing Variant Call Files for Trypanosoma brucei clones resistant to nifurtimox or fexinidazole

Alan Fairlamb, & Matthew Berriman
Genomic DNA prepared from parental and drug resistant clones from T.brucei was sequenced on an Illumina HiSeq 2000 sequencer. The Illumina data were aligned against the T.brucei TREU927 reference genome and variants were called using SAMtools v0.1.19 and BCF tools. The files are in variant call format listing all 190064 genomic positions at which any one of the six drug-resistant and the parental parasite lines had a variant call.

Imprinting of Glass Fleming, Goldie & Abdolvand Opt Mater Express 2015

Lauren Fleming, David Goldie & Amin Abdolvand
A diffractive optical element is fabricated in soda-lime float glass using a simple and inexpensive process. The glass is sandwiched between a mesh anode (lattice constant 2 μm) and a flat metal cathode. Applying a direct current while at a moderately elevated temperature of 553 K induces thermal poling of the glass. The result is that the structured pattern of the electrode is imprinted on the glass as the electric field causes ion depleted regions...

Tweets from #leadersdebate (2015 UK General Election TV Debates)

Nick Taylor
Tweets using #leadersdebate hashtag collected during ITV Leader's Debate on 2nd April 2015 in the lead-up to the 2015 UK General Election. 100 tweets were requested from the Search API every 30 seconds, beginning at the start of the debate and continuing for approximately 90 minutes afterwards. Retweets were excluded. 772 tweets (every 20th message) were analysed and are provided here. Due to licensing restrictions, only the tweet IDs can be made available. Users of...

RNAi screens for Rho GTPase regulators of cell shape and YAP/TAZ localisation in triple negative breast cancer

Patricia Pascual Vargas, Samuel Cooper, Julia Sero, Vicky Bousgouni, Mar Arias-Garcia & Chris Bakal
In order to metastasize triple negative breast cancer (TNBC) must make dynamic changes in cell shape. The shape of all eukaryotic cells is regulated by Rho GTP Exchange Factors (RhoGEFs), which activate Rho-family GTPases in response to mechanical and informational cues. In contrast, Rho GTPase-activating proteins (RhoGAPs) inhibit Rho GTPases. However, which RhoGEFs and RhoGAPS couple TNBC cell shape to changes in their environment is very poorly understood. Moreover, whether the activity of particular RhoGEFs...

RNAi screens for Rho GTPase regulators of cell shape and YAP/TAZ localisation in triple negative breast cancer

Patricia Pascual Vargas, Samuel Cooper, Julia Sero, Vicky Bousgouni, Mar Arias-Garcia & Chris Bakal
In order to metastasize triple negative breast cancer (TNBC) must make dynamic changes in cell shape. The shape of all eukaryotic cells is regulated by Rho GTP Exchange Factors (RhoGEFs), which activate Rho-family GTPases in response to mechanical and informational cues. In contrast, Rho GTPase-activating proteins (RhoGAPs) inhibit Rho GTPases. However, which RhoGEFs and RhoGAPS couple TNBC cell shape to changes in their environment is very poorly understood. Moreover, whether the activity of particular RhoGEFs...

Uncovering the signaling landscape controlling breast cancer cell migration identifies novel metastasis driver genes

Esmee Koedoot
Triple-negative breast cancer (TNBC) is an aggressive and highly metastatic breast cancer subtype. Enhanced TNBC cell motility is a prerequisite of TNBC cell dissemination. Here, we apply an imaging-based RNAi phenotypic cell migration screen using two highly motile TNBC cell lines (Hs578T and MDA-MB-231) to provide a repository of signaling determinants that functionally drive TNBC cell motility.

Uncovering the signaling landscape controlling breast cancer cell migration identifies novel metastasis driver genes

Esmee Koedoot
Primary RNAi screen using 4198 smartpool siRNAs to identify cell migratory regulators in Hs578T and MDA-MB-231 triple-negative breast cancer cells.

Time-resolved imaging-based CRISPRi screening method.

Johan Elf

Common genetic variation drives molecular heterogeneity in human iPSCs

Helena Kilpinen, Angela Goncalves, Andreas Leha, , Sofie Ashford, , Dalila Bensaddek, Francesco Paolo Casale, Oliver Culley, Petr Danacek, Adam Faulconbridge, Peter Harrison, Davis McCarthy, Shane A McCarthy, Ruta Meleckyte, Yasin Memari, Nathalie Moens, Filipa Soares, Ian Streeter, , Alex Alderton, Rachel Nelson, Sarah Harper, Minal Patel, Laura Clarke … & Daniel J Gaffney
Our study provides a comprehensive picture of the major sources of genetic and phenotypic variation in iPSCs and establishes their suitability for use in genetic studies of complex human traits and cancer. Using a combination of genome-wide analyses we find that 5-25% of the variation in different iPSC phenotypes, including differentiation capacity and cellular morphology, arises from differences between individuals. We also assess the phenotypic effects of rare, genomic copy number mutations that are recurrently...

Chromatin arranges in chains of mesoscale domains with nanoscale functional topography independent of cohesin

Ezequiel Miron
Here we use 3D super-resolution and scanning electron microscopy to analyze structural and functional nuclear organization in somatic cells. We identify linked chromatin domains (CDs) composed of irregular ~200-300-nm-wide aggregates of nucleosomes that can overlap with individual topologically associating domains and are distinct from a surrounding RNA-populated interchromatin region. High-content mapping uncovers confinement of cohesin and active histone modifications to surfaces and enrichment of repressive modifications towards the core of CDs in both hetero- and...

Graph-based description of tertiary lymphoid organs (TLOs) at single-cell.

Friedrich Feuerhake
Object-oriented image analysis and graph-based description of the spatial context of B- and T-lymphocytes were performed to reflect the degree of organization in lymphocyte accumulations and their similarity with TLOs. This study addresses the need to detect and reproducibly classify immune cell infiltrates in histopathological sections. We propose complementing observer-dependent approaches of immune cell evaluation in microscopy images with reproducible measures for spatial composition of lymphocytic infiltrates.

Chromatin arranges in chains of mesoscale domains with nanoscale functional topography independent of cohesin

Ezequiel Miron
Here we use 3D super-resolution and scanning electron microscopy to analyze structural and functional nuclear organization in somatic cells. We identify linked chromatin domains (CDs) composed of irregular ~200-300-nm-wide aggregates of nucleosomes that can overlap with individual topologically associating domains and are distinct from a surrounding RNA-populated interchromatin region. High-content mapping uncovers confinement of cohesin and active histone modifications to surfaces and enrichment of repressive modifications towards the core of CDs in both hetero- and...

Visual programming for structural assessment of out-of-plane mechanisms in historic masonry structures

Marco Francesco Funari & Saverio Spadea
A visual script created during the work for the paper ‘Visual programming for structural assessment of out-of-plane mechanisms in historic masonry structures’, published by Funari, Spadea et al. (2020) in the Journal of Building Engineering. A support guide document to approach the visual scripting for structural assessment of historic masonry structures. The guide shows the practical aspects of the methods theoretically developed in the paper. The dataset of a benchmark case study suitable to test...

High content genome-wide siRNA screen to investigate the coordination of cell size and RNA production

Micha Müller
Coordination of RNA abundance and transcription rates with cell size has been observed in diverse organisms and isogenic cell populations. However, how cells achieve such ‘size-scaling’ of transcription is unknown. Here we describe a genome-wide siRNA screen to find novel regulators of global RNA production in human cells. We quantify single-cell RNA production rates using metabolic pulse-labelling of RNA and subsequent high-content imaging. Our quantitative, single-cell measurements of DNA, nascent RNA, proliferating cell nuclear antigen...

High-content image-based drug screen identifies a clinical compound against cell transmission of adenovirus

Fanny Georgi
Screen Description Primary image-based screen of 1,278 mostly FDA-approved, off-patent small molecules, collected in the Prestwick Chemical Library for inhibitors of Human adenovirus infection

Supporting data for “A Systematic Study of the In Vitro Pharmacokinetics and Estimated Human In Vivo Clearance of Indole and Indazole-3-Carboxamide Synthetic Cannabinoid Receptor Agonists Detected on the Illicit Drug Market”

Andrew Brandon, Craig McKenzie, Lysbeth Antonides & Kevin Read
This dataset comprises supporting information for the peer-reviewed manuscript: A Systematic Study of the In Vitro Pharmacokinetics and Estimated Human In Vivo Clearance of Indole and Indazole-3-Carboxamide Synthetic Cannabinoid Receptor Agonists Detected on the Illicit Drug Market published in the journal ‘Molecules’.

Registration Year

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    45
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    53
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    29
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    12
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    10
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    18
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    9

Resource Types

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    153
  • Text
    87
  • Dataset
    49
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    5
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    4
  • Interactive Resource
    2

Affiliations

  • University of Dundee
    110
  • University of Zurich
    7
  • University of Toronto
    7
  • Paul Sabatier University
    5
  • RIKEN
    3
  • National Taiwan University Hospital
    3
  • Harvard University
    3
  • University of Maryland, Baltimore
    3
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