1. Articles from Marinko V. Sarunic

    1-24 of 57 1 2 3 »
    1. Pseudo-real-time retinal layer segmentation for high-resolution adaptive optics optical coherence tomography

      Pseudo-real-time retinal layer segmentation for high-resolution adaptive optics optical coherence tomography

      We present a pseudo-real-time retinal layer segmentation for high-resolution Sensorless Adaptive Optics-Optical Coherence Tomography (SAO-OCT). Our pseudo-real-time segmentation method is based on Dijkstra’s algorithm that uses the intensity of pixels and the vertical gradient of the image to find the minimum cost in a geometric graph formulation within a limited search region. It segments six retinal layer boundaries in an iterative process according to their order of prominence. The segmentation time is strongly correlated to the number of retinal layers to be segmented. Our program permits en face images to be extracted during data acquisition to guide the depth ...

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    2. Cascaded Deep Neural Networks for Retinal Layer Segmentation of Optical Coherence Tomography with Fluid Presence

      Cascaded Deep Neural Networks for Retinal Layer Segmentation of Optical Coherence Tomography with Fluid Presence

      Optical coherence tomography (OCT) is a non-invasive imaging technology which can provide micrometer-resolution cross-sectional images of the inner structures of the eye. It is widely used for the diagnosis of ophthalmic diseases with retinal alteration, such as layer deformation and fluid accumulation. In this paper, a novel framework was proposed to segment retinal layers with fluid presence. The main contribution of this study is two folds: 1) we developed a cascaded network framework to incorporate the prior structural knowledge; 2) we proposed a novel deep neural network based on U-Net and fully convolutional network, termed LF-UNet. Cross validation experiments proved ...

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    3. Multi-scale and -contrast sensorless adaptive optics optical coherence tomography

      Multi-scale and -contrast sensorless adaptive optics optical coherence tomography

      Background: The roles of the retinal microvasculature and the retinal pigment epithelium (RPE) in maintaining the health and metabolic activity of the retina lend great clinical value to their high-resolution visualization. Methods: By integrating polarization diversity detection (PDD) into multi-scale and -contrast sensorless adaptive optics optical coherence tomography (MSC-SAO-OCT), we have developed a novel multi-contrast SAO OCT system for imaging pigment in the RPE as well as flow in the retinal capillaries using OCT angiography (OCTA). Aberration correction was performed based on the image quality using transmissive deformable optical elements. Results: MSC-SAO-OCTA imaging was performed at multiple fields-of-view (FOVs) with ...

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    4. Deep-Learning based Multiclass Retinal Fluid Segmentation and Detection in Optical Coherence Tomography Images using a Fully Convolutional Neural Network

      Deep-Learning based Multiclass Retinal Fluid Segmentation and Detection in Optical Coherence Tomography Images using a Fully Convolutional Neural Network

      As a non-invasive imaging modality, optical coherence tomography (OCT) can provide micrometer-resolution 3D images of retinal structures. These images can help reveal disease-related alterations below the surface of the retina, such as the presence of edema, or accumulation of fluid which can distort vision, and are an indication of disruptions in the vasculature of the retina. In this paper, a new framework is proposed for multiclass fluid segmentation and detection in the retinal OCT images. Based on the intensity of OCT images and retinal layer segmentations provided by a graph-cut algorithm, a fully convolutional neural network was trained to recognize ...

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    5. EN FACE OPTICAL COHERENCE TOMOGRAPHY AND OPTICAL COHERENCE TOMOGRAPHY ANGIOGRAPHY OF INNER RETINAL DIMPLES AFTER INTERNAL LIMITING MEMBRANE PEELING FOR FULL-THICKNESS MACULAR HOLES

      EN FACE OPTICAL COHERENCE TOMOGRAPHY AND OPTICAL COHERENCE TOMOGRAPHY ANGIOGRAPHY OF INNER RETINAL DIMPLES AFTER INTERNAL LIMITING MEMBRANE PEELING FOR FULL-THICKNESS MACULAR HOLES

      Purpose: To quantitatively and qualitatively evaluate the microvascular and structural abnormalities associated with inner retinal dimpling after internal limiting membrane peeling for full-thickness macular holes using sequential en face optical coherence tomography ( OCT ) and OCT angiography. Methods: Thirteen eyes of 13 patients with idiopathic full-thickness macular holes were enrolled in the study. Patients were treated with pars plana vitrectomy , internal limiting membrane peeling, and gas tamponade. Subjects were evaluated preoperatively and at postoperative Months 1, 3, and 6. At each visit, patients underwent a comprehensive ophthalmologic examination, en face OCT and OCT angiography. The morphology and number and proportionate area ...

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    6. Aperture phase modulation with adaptive optics

      Aperture phase modulation with adaptive optics

      Speckle is an inevitable consequence of the use of coherent light in imaging and acts as noise that corrupts image formation in most applications. Optical coherence tomographic imaging, as a technique employing coherence time gating, suffers from speckle. We present here a novel method of suppressing speckle noise intrinsically compatible with adaptive optics (AO) for confocal coherent imaging: modulation of the phase in the system pupil aperture with a segmented deformable mirror (DM) to introduce minor perturbations in the point spread function. This approach creates uncorrelated speckle patterns in a series of images, enabling averaging to suppress speckle noise while ...

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    7. Automated identification of cone photoreceptors in adaptive optics optical coherence tomography images using transfer learning

      Automated identification of cone photoreceptors in adaptive optics optical coherence tomography images using transfer learning

      Automated measurements of the human cone mosaic requires the identification of individual cone photoreceptors. The current gold standard, manual labeling, is a tedious process and can not be done in a clinically useful timeframe. As such, we present an automated algorithm for identifying cone photoreceptors in adaptive optics optical coherence tomography (AO-OCT) images. Our approach fine-tunes a pre-trained convolutional neural network originally trained on AO scanning laser ophthalmoscope (AO-SLO) images, to work on previously unseen data from a different imaging modality. On average, the automated method correctly identified 94% of manually labeled cones when compared to manual raters, from twenty ...

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    8. Visible light sensorless adaptive optics for retinal structure and fluorescence imaging

      Visible light sensorless adaptive optics for retinal structure and fluorescence imaging

      Optical coherence tomography (OCT) has emerged as a powerful imaging instrument and technology in biomedicine. OCT imaging is predominantly performed using wavelengths in the near infrared; however, visible light (VIS) has been recently employed in OCT systems with encouraging results for high-resolution retinal imaging. Using a broadband supercontinuum VIS source, we present a sensorless adaptive optics (SAO) multimodal imaging system driven by VIS-OCT for volumetric retinal structural imaging, followed by the acquisition of fluorescence emission. The coherence-gated, depth-resolved VIS-OCT images used for image-guided SAO aberration correction enable high-resolution structural and fluorescence imaging.

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    9. Aperture Phase Modulation with Adaptive Optics: A Novel Approach for Speckle Reduction and Structure Extraction in Optical Coherence Tomography

      Aperture Phase Modulation with Adaptive Optics: A Novel Approach for Speckle Reduction and Structure Extraction in Optical Coherence Tomography

      Speckle is an inevitable consequence of the use of coherent light in optical coherence tomography (OCT), and often acts as noise that obscures micro-structures of biological tissue. We here present a novel method of suppressing speckle noise intrinsically compatible with adaptive optics (AO) in OCT system: by modulating the phase inside the imaging system pupil aperture with a segmented deformable mirror, thus producing minor perturbations in the point spread function (PSF) to create un-correlated speckle pattern between B-scans, and further averaging to wash out the speckle but maintain the structures. It is a well-controlled and universal method which can efficiently ...

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    10. Label‐free volumetric imaging of conjunctival collecting lymphatics ex vivo by optical coherence tomography lymphangiography

      Label‐free volumetric imaging of conjunctival collecting lymphatics ex vivo by optical coherence tomography lymphangiography

      We employ optical coherence tomography (OCT) and optical coherence microscopy (OCM) to study conjunctival lymphatics in porcine eyes ex vivo . This study is a precursor to the development of in vivo imaging of the collecting lymphatics for potentially guiding and monitoring glaucoma filtration surgery. OCT scans at 1300 nm and higher‐resolution OCM scans at 785 nm reveal the lymphatic vessels via their optical transparency. Equivalent signal characteristics are also observed from blood vessels largely free of blood (and devoid of flow) in the ex vivo conjunctiva. In our lymphangiography, vessel networks were segmented by compensating the depth attenuation in ...

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    11. Effective bidirectional scanning pattern for optical coherence tomography angiography

      Effective bidirectional scanning pattern for optical coherence tomography angiography

      We demonstrate the utility of a novel scanning method for optical coherence tomography angiography (OCTA). Although raster scanning is commonly used for OCTA imaging, a bidirectional approach would lessen the distortion caused by galvanometer-based scanners as sources continue to increase sweep rates. As shown, a unidirectional raster scan approach has a lower effective scanning time than bidirectional approaches; however, a strictly bidirectional approach causes contrast variation along the B-scan direction due to the non-uniform time interval between B-scans. Therefore, a stepped bidirectional approach is introduced and successfully applied to retinal imaging in normal controls and in a pathological subject with ...

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    12. Investigation of the effect of directional (off-axis) illumination on the reflectivity of retina layers in mice using swept-source optical coherence tomography

      Investigation of the effect of directional (off-axis) illumination on the reflectivity of retina layers in mice using swept-source optical coherence tomography

      Changes in visibility of the Henle fiber layer and photoreceptor bands of the human retina with illumination directionality have been reported in OCT clinical imaging. These are a direct consequence of the changes in back scattering due to fibrous tissue orientation and to waveguiding properties of the photoreceptors respectively. Here we report the preliminary results of a study on the effects of retinal images acquired with OCT of illumination directionality in the mouse retina. The quantitative assessment of the reflectivity of retinal layers of a BALB/c and WT pigmented mice was performed in-vivo using a swept-source optical coherence tomography ...

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    13. Adaptive optics with combined optical coherence tomography and scanning laser ophthalmoscopy for in vivo mouse retina imaging

      Adaptive optics with combined optical coherence tomography and scanning laser ophthalmoscopy for in vivo mouse retina imaging

      Optical coherence tomography (OCT) and scanning laser ophthalmoscopy (SLO) are two state-of-the-art imaging technologies commonly used to study retina. Adaptive Optics (AO) methodologies enable high-fidelity correction of ocular aberrations, resulting in improved resolution and sensitivity for both SLO and OCT systems. Here we present work integrating OCT into a previously described mouse retinal AO-SLO system, allowing simultaneous reflectance and fluorescence imaging. The new system allows simultaneous data acquisition of AO-SLO and AO-OCT, facilitating registration and comparison of data from both modalities. The system has data acquisition speed of 200 kHz A-scans/pixel, and high volumetric resolution.

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    14. Multiscale sensorless adaptive optics OCT angiography system for in vivo human retinal imaging

      Multiscale sensorless adaptive optics OCT angiography system for in vivo human retinal imaging

      We present a multiscale sensorless adaptive optics (SAO) OCT system capable of imaging retinal structure and vasculature with various fields-of-view (FOV) and resolutions. Using a single deformable mirror and exploiting the polarization properties of light, the SAO-OCT-A was implemented in a compact and easy to operate system. With the ability to adjust the beam diameter at the pupil, retinal imaging was demonstrated at two different numerical apertures with the same system. The general morphological structure and retinal vasculature could be observed with a few tens of micrometer-scale lateral resolution with conventional OCT and OCT-A scanning protocols with a 1.7-mm-diameter ...

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    15. Retinal Fluid Segmentation and Detection in Optical Coherence Tomography Images using Fully Convolutional Neural Network

      Retinal Fluid Segmentation and Detection in Optical Coherence Tomography Images using Fully Convolutional Neural Network

      As a non-invasive imaging modality, optical coherence tomography (OCT) can provide micrometer-resolution 3D images of retinal structures. Therefore it is commonly used in the diagnosis of retinal diseases associated with edema in and under the retinal layers. In this paper, a new framework is proposed for the task of fluid segmentation and detection in retinal OCT images. Based on the raw images and layers segmented by a graph-cut algorithm, a fully convolutional neural network was trained to recognize and label the fluid pixels. Random forest classification was performed on the segmented fluid regions to detect and reject the falsely labeled ...

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    16. Strip-based registration of serially acquired optical coherence tomography angiography

      Strip-based registration of serially acquired optical coherence tomography angiography

      The visibility of retinal microvasculature in optical coherence tomography angiography (OCT-A) images is negatively affected by the small dimension of the capillaries, pulsatile blood flow, and motion artifacts. Serial acquisition and time-averaging of multiple OCT-A images can enhance the definition of the capillaries and result in repeatable and consistent visualization. We demonstrate an automated method for registration and averaging of serially acquired OCT-A images. Ten OCT-A volumes from six normal control subjects were acquired using our prototype 1060-nm swept source OCT system. The volumes were divided into microsaccade-free en face angiogram strips, which were affine registered using scale-invariant feature transform ...

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    17. Aortic and Cardiac Structure and Function Using High-Resolution Echocardiography and Optical Coherence Tomography in a Mouse Model of Marfan Syndrome

      Aortic and Cardiac Structure and Function Using High-Resolution Echocardiography and Optical Coherence Tomography in a Mouse Model of Marfan Syndrome

      Marfan syndrome (MFS) is an autosomal-dominant disorder of connective tissue caused by mutations in the fibrillin-1 (FBN1) gene. Mortality is often due to aortic dissection and rupture. We investigated the structural and functional properties of the heart and aorta in a [ Fbn1 C1039G/+ ] MFS mouse using high-resolution ultrasound (echo) and optical coherence tomography (OCT). Echo was performed on 6- and 12-month old wild type (WT) and MFS mice (n = 8). In vivo pulse wave velocity (PWV), aortic root diameter, ejection fraction, stroke volume, left ventricular (LV) wall thickness, LV mass and mitral valve early and atrial velocities (E/A) ratio ...

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    18. Atlas-based shape analysis and classification of retinal optical coherence tomography images using the functional shape (fshape) framework

      Atlas-based shape analysis and classification of retinal optical coherence tomography images using the functional shape (fshape) framework

      We propose a novel approach for quantitative shape variability analysis in retinal optical coherence tomography images using the functional shape (fshape) framework. The fshape framework uses surface geometry together with functional measures, such as retinal layer thickness defined on the layer surface, for registration across anatomical shapes. This is used to generate a population mean template of the geometry-function measures from each individual. Shape variability across multiple retinas can be measured by the geometrical deformation and functional residual between the template and each of the observations. To demonstrate the clinical relevance and application of the framework, we generated atlases of ...

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    19. Quantitative Optical Coherence Tomography Angiography of Radial Peripapillary Capillaries in Glaucoma, Glaucoma Suspect and Normal Eyes

      Quantitative Optical Coherence Tomography Angiography of Radial Peripapillary Capillaries in Glaucoma, Glaucoma Suspect and Normal Eyes

      Purpose To evaluate the quantitative characteristics of the radial peripapillary capillary (RPC) network in glaucoma, glaucoma suspect and normal eyes using speckle variance optical coherence tomography angiography (OCT-A). To determine correlations between RPC density, nerve fibre layer (NFL) thickness and visual field indices. Design Cross sectional study. Methods OCT-A images of RPCs were acquired at a single institution using a custom-built 1060nm system from three groups: unilateral glaucoma (10 eyes from 5 subjects); glaucoma suspects (6 eyes from 3 subjects); and normal control eyes (16 eyes from 9 normal subjects). Peripapillary NFL thickness measurements were determined using spectral-domain OCT. Glaucoma ...

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    20. Lens-based wavefront sensorless adaptive optics swept source OCT

      Lens-based wavefront sensorless adaptive optics swept source OCT

      Optical coherence tomography (OCT) has revolutionized modern ophthalmology, providing depth resolved images of the retinal layers in a system that is suited to a clinical environment. Although the axial resolution of OCT system, which is a function of the light source bandwidth, is sufficient to resolve retinal features at a micrometer scale, the lateral resolution is dependent on the delivery optics and is limited by ocular aberrations. Through the combination of wavefront sensorless adaptive optics and the use of dual deformable transmissive optical elements, we present a compact lens-based OCT system at an imaging wavelength of 1060 nm for high ...

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    21. Retinal optical coherence tomography at 1  μm with dynamic focus control and axial motion tracking

      Retinal optical coherence tomography at 1  μm with dynamic focus control and axial motion tracking

      High-resolution optical coherence tomography (OCT) retinal imaging is important to noninvasively visualize the various retinal structures to aid in better understanding of the pathogenesis of vision-robbing diseases. However, conventional OCT systems have a trade-off between lateral resolution and depth-of-focus. In this report, we present the development of a focus-stacking OCT system with automatic focus optimization for high-resolution, extended-focal-range clinical retinal imaging by incorporating a variable-focus liquid lens into the sample arm optics. Retinal layer tracking and selection was performed using a graphics processing unit accelerated processing platform for focus optimization, providing real-time layer-specific en face visualization. After optimization, multiple volumes ...

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    22. In vivo wide-field multispectral scanning laser ophthalmoscopy–optical coherence tomography mouse retinal imager: longitudinal imaging of ganglion cells, microglia, and Müller glia, and mapping of the mouse retinal and choroidal vasculature

      In vivo wide-field multispectral scanning laser ophthalmoscopy–optical coherence tomography mouse retinal imager: longitudinal imaging of ganglion cells, microglia, and Müller glia, and mapping of the mouse retinal and choroidal vasculature

      Scanning laser ophthalmoscopy (SLO) and optical coherence tomography (OCT) provide complementary views of the retina, with the former collecting fluorescence data with good lateral but relatively low-axial resolution, and the latter collecting label-free backscattering data with comparable lateral but much higher axial resolution. To take maximal advantage of the information of both modalities in mouse retinal imaging, we have constructed a compact, four-channel, wide-field ( ∼ 50     deg ) system that simultaneously acquires and automatically coregisters three channels of confocal SLO and Fourier domain OCT data. The scanner control system allows “zoomed” imaging of a region of interest identified in a wide-field image ...

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    23. Quantitative Noninvasive Angiography of the Fovea Centralis Using Speckle Variance Optical Coherence Tomography

      Quantitative Noninvasive Angiography of the Fovea Centralis Using Speckle Variance Optical Coherence Tomography

      Purpose : To demonstrate the utility of speckle variance optical coherence tomography (svOCT), a noninvasive angiographic technique, for evaluating the foveal vasculature. Methods : Twelve normal human eyes were imaged with svOCT (1060-nm, 100-kHz custom-built system) and fluorescein angiography (FA; Topcon TRC-50DX with 5.0 megapixel resolution camera). Manual tracing techniques were used to quantify the foveal vasculature, including foveal avascular zone (FAZ) metrics (area, perimeter, greatest diameter, and lowest diameter). Reproducibility of these measurements was determined. The FAZ was imaged in 25 normal eyes using svOCT and 15 donor eyes using confocal scanning laser microscopy. Retinal capillary plexuses in donor eyes ...

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    24. Quantitative Comparison of Retinal Capillary Images Derived By Speckle Variance Optical Coherence Tomography With Histology

      Quantitative Comparison of Retinal Capillary Images Derived By Speckle Variance Optical Coherence Tomography With Histology

      Purpose. The purpose of this study was to correlate human retinal capillary network information derived from a prototype speckle variance optical coherence tomography (svOCT) device with histology to determine the utility of this instrument for quantitative angiography. Methods. A retina location 3 mm superior to the optic disk was imaged with svOCT in 14 healthy human eyes. Qualitative and quantitative features of capillary networks, including capillary diameter and density, were compared with perfusion-labeled histological specimens from the same eccentricity. Twelve human donor eyes with no history of eye disease were used for histological comparisons. Results. svOCT was able to clearly ...

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    1-24 of 57 1 2 3 »
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