• Location of CD39+ T cell sub-populations within tumours predict differential outcomes in non-small cell lung cancer 

  Koppensteiner, Lilian; Mathieson, Layla; Pattle, Samuel; Dorward, David A.; O'Connor, Richard; Akram, Ahsan R.

  Nanostring nCounter targeted RNA Seq. data of CD4+ and CD8+ T cells isolated from human non-cancerous lung tissue and non-small cell lung cancer tumour tissue as shown in Koppensteiner et al. (in submission), "Location of ...
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  Data for publication "Deep Learning-Assisted Co-registration of Full-Spectral Autofluorescence Lifetime Microscopic Images with H&E-Stained Histology Images" 

  Wang, Qiang; Fernandes, Susan; Finalyson, Neil; Akram, Ahsan R.; Williams, Gareth OS.

  This dataset contains partial data underlying figure 2 (first 2 rows), 3 and 5 in "Deep Learning-Assisted Co-registration of Full-Spectral Autofluorescence Lifetime Microscopic Images with H&E-Stained Histology Images". ...
• Autofluorescence lifetime endomicroscopic images on ex-vivo lung cancer 

  Fernandes, Susan; OS Williams, Gareth; Williams, Elvira; Finlayson, Neil; Wang, Qiang; Akram, Ahsan

  This dataset contains the data for the publication of "A Layer-Level Multi-Scale Architecture for Lung Cancer Classification with Fluorescence Lifetime Imaging Endomicroscopy". This was collected by a custom-built dual-band ...
• Data for publication "Full spectral fluorescence lifetime Imaging with 0.5 nm spectral and 50 ps temporal resolution" 

  Williams, Gareth Owen Scott; Williams, Elvira; Finlayson, Neil; Wang, Qiang; Fernandes, Susan; Akram, Ahsan

  This dataset contains the data underlying the figure 2-5 of the paper "Full spectral fluorescence lifetime imaging with 0.5 nm spectral and 50 ps temporal resolution". The datafiles contain the data for full spectral ...
• Red-shifted environmental fluorophores and their use for the detection of Gram-negative bacteria_raw spectral data 

  Megia-Fernandez, Alicia; Klausen, Maxime; Mills, Beth; Brown, Gillian E.; McEwan, Heather; Finlayson, Neil; Dhaliwal, Kevin; Bradley, Mark

  Spectral data (absorption, fluorescence, lifetime) of merocyanine derivatives described in the research article entitled "Red-shifted environmental fluorophores and their use for the detection of Gram-negative bacteria" ...
• Source code and example data for "Open source image processing methods for real-time fibre bundle optical endomicroscopy" 

  Norberg, Dominic

  The dataset contains source code in C++ (with OpenCV) and MATLAB (with Image Processing Toolbox) to process images acquired by Optical Endomicroscopy (OEM) with imaging fibre bundles. Example images of human and porcine ...
• Data and code for Core crosstalk in ordered imaging fibre bundles 

  Parker, Helen; Perperidis, Antonios; Stone, James; Dhaliwal, Kev; Tanner, Mike

  Data and code for the paper: "Core crosstalk in ordered imaging fibre bundles" Parker, H, et al. (Accepted manuscript).
• Supplementary material for paper "Time-resolved spectroscopy of fluorescence quenching in optical fibre-based pH sensors" 

  Ehrlich, Katjana

  Abstract: Numerous optodes, with fluorophores as the chemical sensing element and optical fibres for light delivery and collection, have been fabricated for minimally invasive endoscopic measurements of key physiological ...
• Quantitative magnetic resonance imaging predicts individual future liver performance after liver resection for cancer 

  Mole, Damian

  The risk of poor post-operative outcome and the benefits of surgical resection as a curative therapy require careful assessment by the clinical care team for patients with primary and secondary liver cancer. Advances in ...
• Exploratory use of fluorescent SmartProbes for the rapid detection of microbial isolates causing corneal ulcer 

  Mills, B

  # Purpose # To explore the use of optical SmartProbes for the rapid evaluation of corneal scrapes from patients with suspected microbial keratitis, as a clinical alternative to Gram stain. # Design # Experimental ...
• Molecular Detection of Gram-positive Bacteria in the Human Lung through an Optical Fiber Based Endoscope 

  Ucuncu, M; Mills, B

  # Purpose # The relentless rise in antimicrobial resistance is a major societal challenge and requires, as part of its solution, a better understanding of bacterial colonization and infection. To facilitate this, we ...
• Frugal filtering optical lenses for point-of-care diagnostics 

  Mills, Beth

  Abstract: Infectious diseases are the leading cause of morbidity and mortality in low and middle income countries (LMICs). Rapid diagnosis of infections in LMICs presents many challenges especially in rural areas where ...
• Single-cell transcriptomics uncovers zonation of function in the mesenchyme during liver fibrosis - Seurat objects 

  Dobie, Ross; Wilson-Kanamori, John Roger; Henderson, Neil

  We profile the transcriptomes of ~30,000 mouse single cells to deconvolve the hepatic mesenchyme in healthy and fibrotic liver at high resolution. We reveal spatial zonation of hepatic stellate cells across the liver lobule, ...
• Resolving the fibrotic niche of human liver cirrhosis at single-cell level - Seurat RData object 

  Ramachandran, Prakash; Henderson, Neil; Wilson-Kanamori, John Roger

  We profile the transcriptomes of non-parenchymal cell types present in healthy and cirrhotic human liver. In particular, we uncover a novel scar-associated TREM2+CD9+ macrophage subpopulation, which expands in liver fibrosis, ...
• Circuits! - Demonstrating the use of optical fibres in biomedical sciences 

  Ehrlich, Katjana; Parker, Helen E; McNicholl, Duncan K; Reid, Peter; Reynolds, Mark; Bussiere, Vincent; Crawford, Graham; Deighan, Angela; Garrett, Alice; Kufcsák, András; Norberg, Dominic R; Spennati, Giulia; Szoor-McElhinney, Helen; Jimenez, Melanie

  The Circuits! - project, funded through the The Royal Academy of Engineering Ingenious Grant (ING1617/11/114), demonstrates how research at the intersection of physics, engineering, biology, and medicine can be presented ...
• Data and code for: High fidelity fibre-based physiological sensing deep in tissue 

  Tanner, Michael G

  Physiological sensing deep in tissue, remains a clinical challenge. Here a flexible miniaturised sensing optrode providing a platform to perform minimally invasive in vivo in situ measurements is reported. Silica microspheres ...
• Data and Code for "Fibre-based Spectral Ratio Endomicroscopy for Contrast Enhancement of Bacterial Imaging and Pulmonary Autofluorescence" 

  Tanner, Michael G; Parker, Helen E; Stone, James M; Thomson, Robert R; Marshall, Adam D L; Choudhary, Tushar R; Dhaliwal, Kevin

  Fibre-based optical endomicroscopy (OEM) permits high resolution fluorescence microscopy in endoscopically accessible tissues. Fibred OEM has the potential to visualise pathologies targeted with fluorescent imaging probes ...
• Role of accelerated ageing in limb muscle wasting of patients with Chronic Obstructive Pulmonary Disease (COPD) 

  Lakhdar, Ramzi; McGuinness, Dagmara; Drost, Ellen M; Shiels, Paul G; Bastos, Ricardo; MacNee, William; Rabinovich, Roberto A

  Skeletal muscle wasting is an independent predictor of health-related quality of life, and survival in COPD, but the complexity of the molecular mechanisms associated with this process have not been fully elucidated. We ...
• Serial AFP measurement in confirmed HCC cases 

  Bird, Tom

  This dataset was used in the work to define a Bayesian analysis of serial AFP fluctuations in patients with hepatocellular carcinoma (HCC) in order to improve HCC detection. It consists of all 66 patients whom had AFP ...
• Serial serum AFP results for HCC free patients in HCC surveillance cohort 

  Bird, Tom

  Data used for analysis is related submission to PLOS ONE. Ethical approval given for deposition in publicly available repository by local ethics committee. Individual patients each have a series of AFP results (serum) taken ...

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