Journal: Translational Vision Science & Technology

Article Title: AutoMorph: Automated Retinal Vascular Morphology Quantification Via a Deep Learning Pipeline

doi: 10.1167/tvst.11.7.12

Figure Lengend Snippet: Characteristics of the Training and External Validation Data

Article Snippet: External validation data , AV-WIDE , , USA , 30 (100%) , 200Tx Ultra-widefield Imaging Device (Optos, Dunfermline, UK).

Techniques: Biomarker Discovery, Imaging

Journal: Eye and Vision

Article Title: Deep learning for detection of Fuchs endothelial dystrophy from widefield specular microscopy imaging: a pilot study

doi: 10.1186/s40662-024-00378-1

Figure Lengend Snippet: Figure demonstrating the clinical utility of the second deep learning model. Green ticks represent widefield specular microscopy (SM) images which have ECD > 1000 cells/mm 2 . Red crosses represent widefield SM images which have ECD ≤ 1000 cells/mm 2

Article Snippet: Fig. 1 Various specular microscopy (SM) images that are used to train deep learning (DL) model 1. a Normal SM image. b SM image with Fuchs endothelial corneal dystrophy (FECD) (non-confluent guttae). c SM image with FECD (confluent guttae). d SM image with pigments on endothelium (uveitis) A third independent database consisting 753 paracentral and 557 peripheral SM images from only eyes with FECD, using a non-contact widefield SM system (CEM-530, Nidek Co., Ltd, Japan) was used to train the second DL model.

Techniques: Microscopy

Journal: Data in Brief

Article Title: Pathophysiology of outer retinal corrugations: Imaging dataset and mechanical models

doi: 10.1016/j.dib.2023.108920

Figure Lengend Snippet:

Article Snippet: How the data were acquired , Patients with rhegmatogenous retinal detachment underwent imaging with the Zeiss PLEX Elite 9000 SS-OCT using high-definition horizontal spotlight 16mm scan (× 100), high-definition horizontal 51-line 12mm scan and 12 × 12-mm macular cube, and, in addition, Optos Silverstone ultra-widefield guided SS-OCT (UWF-SS-OCT), depending on the location of the detachment. A subset of images was used to extract input data for mechanical models that determined the elastic energy required to generate outer retinal corrugations with the observed frequency..

Techniques: Imaging

Journal: The ISME Journal

Article Title: Intra-colony channels in E. coli function as a nutrient uptake system

doi: 10.1038/s41396-020-0700-9

Figure Lengend Snippet: A deconvolved 36-μm-thick transverse sub-stack of a mature E. coli macro-colony biofilm acquired using widefield mesoscopy. An axial colour-coded LUT has been applied, which indicates the relative position of each cell within the context of the biofilm. A magnified ROI is presented where individual cells can be clearly resolved. Channel structures are seen to permeate throughout the biofilm and present a 3D topography within the context of the biofilm.

Article Snippet: Imaging of JM105 biofilms using confocal mesoscopy ensured that the deconvolution algorithm used to process widefield Mesolens data did not introduce erroneous structural artefacts.

Techniques:

Journal: The ISME Journal

Article Title: Intra-colony channels in E. coli function as a nutrient uptake system

doi: 10.1038/s41396-020-0700-9

Figure Lengend Snippet: a Maximum intensity projection of an unlabelled JM105 colony acquired using reflection confocal mesoscopy, with a single isolated optical section shown. Reflection imaging determined that intra-colony channels were not occupied by material of differing refractive index to the biomass. The colony-medium interface can be observed clearly, while there is no evident structure within the colony. b Signal from non-viable cells (yellow) was subtracted from viable cells to negate any spectral overlap in the emission of Sytox Green and HcRed1. A composite maximum intensity projection of the entire colony is presented. Intra-colony channels in the viable cell population (cyan) did not contain any non-viable cells. c Alexa594-WGA-stained EPS residues (magenta) were not present in the intra-colony channels when compared with elsewhere in the biofilm, meaning channels were not composed of an EPS-based matrix. The high background signal in the surrounding agar is likely owed to non-specific binding of the WGA dye with gycan components of the agar substrate. d Nile red-stained lipids (red) clustered in the centre of E. coli biofilms while intra-colony channels remain unstained by Nile Red. Therefore, intra-colony channels were not composed of lipids. e Emission of SYPRO Ruby-stained extracellular proteins (magenta) mimicked the spatial patterns of intra-colony channels, showing that channels were filled by a protein-based matrix.

Article Snippet: Imaging of JM105 biofilms using confocal mesoscopy ensured that the deconvolution algorithm used to process widefield Mesolens data did not introduce erroneous structural artefacts.

Techniques: Isolation, Imaging, Refractive Index, Staining, Binding Assay