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Niestrawska JA, Pukaluk A, Babu AR, Holzapfel GA. Differences in Collagen Fiber Diameter and Waviness between Healthy and Aneurysmal Abdominal Aortas. MICROSCOPY AND MICROANALYSIS : THE OFFICIAL JOURNAL OF MICROSCOPY SOCIETY OF AMERICA, MICROBEAM ANALYSIS SOCIETY, MICROSCOPICAL SOCIETY OF CANADA 2022; 28:1-15. [PMID: 35545876 DOI: 10.1017/s1431927622000629] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Collagen plays a key role in the strength of aortic walls, so studying micro-structural changes during disease development is critical to better understand collagen reorganization. Second-harmonic generation microscopy is used to obtain images of human aortic collagen in both healthy and diseased states. Methods are being developed in order to efficiently determine the waviness, that is, tortuosity and amplitude, as well as the diameter, orientation, and dispersion of collagen fibers, and bundles in healthy and aneurysmal tissues. The results show layer-specific differences in the collagen of healthy tissues, which decrease in samples of aneurysmal aortic walls. In healthy tissues, the thick collagen bundles of the adventitia are characterized by greater waviness, both in the tortuosity and in the amplitude, compared to the relatively thin and straighter collagen fibers of the media. In contrast, most aneurysmal tissues tend to have a more uniform structure of the aortic wall with no significant difference in collagen diameter between the luminal and abluminal layers. An increase in collagen tortuosity compared to the healthy media is also observed in the aneurysmal luminal layer. The data set provided can help improve related material and multiscale models of aortic walls and aneurysm formation.
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Affiliation(s)
- Justyna A Niestrawska
- Institute of Biomechanics, Graz University of Technology, Stremayrgasse 16, 8010Graz, Austria
| | - Anna Pukaluk
- Institute of Biomechanics, Graz University of Technology, Stremayrgasse 16, 8010Graz, Austria
| | - Anju R Babu
- Institute of Biomechanics, Graz University of Technology, Stremayrgasse 16, 8010Graz, Austria
| | - Gerhard A Holzapfel
- Institute of Biomechanics, Graz University of Technology, Stremayrgasse 16, 8010Graz, Austria
- Department of Structural Engineering, Norwegian University of Science and Technology (NTNU), 7491Trondheim, Norway
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Lucas A, Munoz CJ, Cabrales P. Hyperspectral Wide-Field-Of-View Imaging to Study Dynamic Microcirculatory Changes During Hypoxia. Am J Physiol Heart Circ Physiol 2022; 323:H49-H58. [PMID: 35522555 DOI: 10.1152/ajpheart.00624.2021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
OBJECTIVE Hyperspectral imaging (HSI) provides a fast, reliable, and non-invasive way the study vascular microcirculation in animal models. Rapid hyperspectral imaging of large portions of the microcirculatory preparation is critical for understanding the function and regulation of vascular microcirculatory networks. METHODS This report presents the application of an off-the-shelf, benchtop, HSI linear scanning system to acquire larger field-of-view images of microcirculatory preparations. The HSI line detector was displaced perpendicular to the scanning direction to map larger areas, with a rate of displacement determined by the scanning rate and the exposure time. The collected image was analyzed to determine dynamic changes in the microcirculation. RESULTS The system records dynamic changes in microvascular hemoglobin (Hb) oxygen (O2) saturation and vascular morphology during hypoxia and reoxygenation and has similar acquisition speeds to commonly referenced spectral-scanning HSI systems. Additionally, the HbO2 saturations collected via HSI closely correlate with those collected by phosphorescence quenching microscopy. CONCLUSION The reported system enables dynamic functional microcirculation imaging for broad experimental and clinical applications.
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Affiliation(s)
- Alfredo Lucas
- Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, United States.,Department of Bioengineering, University of California San Diego, La Jolla, CA, United States
| | - Carlos Jose Munoz
- Department of Bioengineering, University of California San Diego, La Jolla, CA, United States
| | - Pedro Cabrales
- Department of Bioengineering, University of California San Diego, La Jolla, CA, United States
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Smith B, Datta A, Lee J, Evans D, Fleiszig S. Quantification of relative neurite tortuosity using Fourier transforms. J Neurosci Methods 2021; 361:109266. [PMID: 34166700 PMCID: PMC10964090 DOI: 10.1016/j.jneumeth.2021.109266] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2021] [Revised: 05/16/2021] [Accepted: 06/17/2021] [Indexed: 11/29/2022]
Abstract
BACKGROUND The tortuosity of nerve fibers has been shown to be important for identifying and monitoring clinically relevant manifestations resulting from of a variety of ocular and systemic disease pathologies and disorders. However, quantifying tortuosity in dense neurite networks can prove challenging, as existing methods require manual scoring and/or complete segmentation of the neurite network. NEW METHOD We measured neurite tortuosity by quantifying the degree of directional coherence in the Fourier transform of segmented neurite masks. This allowed for the analysis of neurite tortuosity without requiring complete segmentation of the neurite network. We were also able to adapt this method to measure tortuosity at different length and size scales. RESULTS With this novel method, neurite tortuosity was accurately quantified in simulated data sets at multiple length scales and scale variant and scale invariant tortuosity was accurately distinguished. Use of this method on images of murine corneal neurites correctly distinguished known differences between neurite tortuosity in the peripheral and central cornea. COMPARISON WITH EXISTING METHOD(S) Other methods require complete segmentation of neurites, which can be prohibitive in dense and/or sparsely labeled neurite networks such as in the cornea. Additionally, other methods require manual curation, manual scoring, or generation of a curated training set, while our novel method directly measures tortuosity as an intrinsic property of the image. CONCLUSIONS We report the use of Fourier transforms for quantification of neurite tortuosity at multiple length scales, and with an image input that contains incompletely segmented neurites. This new method does not require manual training or curation, allowing a direct and rapid measurement of neurite tortuosity, thereby enhancing the accuracy and utility of neurite tortuosity measurements for evaluation of ocular and systemic disease pathology.
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Affiliation(s)
- Benjamin Smith
- School of Optometry, University of California, Berkeley, CA 94720, USA; Graduate Program in Vision Science, University of California, Berkeley, CA 94720, USA.
| | - Ananya Datta
- School of Optometry, University of California, Berkeley, CA 94720, USA
| | - Justin Lee
- School of Optometry, University of California, Berkeley, CA 94720, USA
| | - David Evans
- School of Optometry, University of California, Berkeley, CA 94720, USA; College of Pharmacy, Touro University California, Vallejo, CA 94592, USA
| | - Suzanne Fleiszig
- School of Optometry, University of California, Berkeley, CA 94720, USA; Graduate Program in Vision Science, University of California, Berkeley, CA 94720, USA
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Sharafi SM, Sylvestre JP, Chevrefils C, Soucy JP, Beaulieu S, Pascoal TA, Arbour JD, Rhéaume MA, Robillard A, Chayer C, Rosa-Neto P, Mathotaarachchi SS, Nasreddine ZS, Gauthier S, Lesage F. Vascular retinal biomarkers improves the detection of the likely cerebral amyloid status from hyperspectral retinal images. ALZHEIMERS & DEMENTIA-TRANSLATIONAL RESEARCH & CLINICAL INTERVENTIONS 2019; 5:610-617. [PMID: 31650017 PMCID: PMC6804547 DOI: 10.1016/j.trci.2019.09.006] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Introduction This study investigates the relationship between retinal image features and β-amyloid (Aβ) burden in the brain with the aim of developing a noninvasive method to predict the deposition of Aβ in the brain of patients with Alzheimer's disease. Methods Retinal images from 20 cognitively impaired and 26 cognitively unimpaired cases were acquired (3 images per subject) using a hyperspectral retinal camera. The cerebral amyloid status was determined from binary reads by a panel of 3 expert raters on 18F-florbetaben positron-emission tomography (PET) studies. Image features from the hyperspectral retinal images were calculated, including vessels tortuosity and diameter and spatial-spectral texture measures in different retinal anatomical regions. Results Retinal venules of amyloid-positive subjects (Aβ+) showed a higher mean tortuosity compared with the amyloid-negative (Aβ−) subjects. Arteriolar diameter of Aβ+ subjects was found to be higher than the Aβ− subjects in a zone adjacent to the optical nerve head. Furthermore, a significant difference between texture measures built over retinal arterioles and their adjacent regions were observed in Aβ+ subjects when compared with the Aβ−. A classifier was trained to automatically discriminate subjects combining the extracted features. The classifier could discern Aβ+ subjects from Aβ− subjects with an accuracy of 85%. Discussion Significant differences in texture measures were observed in the spectral range 450 to 550 nm which is known as the spectral region known to be affected by scattering from amyloid aggregates in the retina. This study suggests that the inclusion of metrics related to the retinal vasculature and tissue-related textures extracted from vessels and surrounding regions could improve the discrimination performance of the cerebral amyloid status.
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Affiliation(s)
| | | | | | - Jean-Paul Soucy
- Montreal Neurological Institute, McGill University, Montreal, Quebec, Canada
| | - Sylvain Beaulieu
- Département de médecine nucléaire, Hôpital Maisonneuve-Rosemont, Montreal, Quebec, Canada
| | - Tharick A Pascoal
- Translational Neuroimaging Laboratory, McGill Centre for Studies in Aging, Douglas Mental Health University Institute, Montreal, Quebec, Canada
| | | | | | - Alain Robillard
- Département de psychiatrie, Hôpital Maisonneuve-Rosemont, Montreal, Quebec, Canada
| | - Céline Chayer
- Département de psychiatrie, Hôpital Maisonneuve-Rosemont, Montreal, Quebec, Canada
| | - Pedro Rosa-Neto
- Translational Neuroimaging Laboratory, McGill Centre for Studies in Aging Douglas Mental Health University Institute, Montreal, Quebec, Canada
| | - Sulantha S Mathotaarachchi
- Translational Neuroimaging Laboratory, McGill Centre for Studies in Aging Douglas Mental Health University Institute, Montreal, Quebec, Canada
| | | | - Serge Gauthier
- Alzheimer's Disease Research Unit, The McGill University Research Centre for Studies in Aging, Montreal, Quebec, Canada
| | - Frédéric Lesage
- Genie Electrique, Polytechnique Montreal, Montreal, Quebec, Canada.,Research Center, Montreal Heart Institute, Montreal, Quebec, Canada
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Annunziata R, Kheirkhah A, Aggarwal S, Hamrah P, Trucco E. A fully automated tortuosity quantification system with application to corneal nerve fibres in confocal microscopy images. Med Image Anal 2016; 32:216-32. [DOI: 10.1016/j.media.2016.04.006] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2015] [Revised: 04/20/2016] [Accepted: 04/20/2016] [Indexed: 12/26/2022]
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Koprowski R, Kasprowski P, Rzendkowski M. Simplified automatic method for measuring the visual field using the perimeter ZERK 1. Biomed Eng Online 2016; 15:88. [PMID: 27456974 PMCID: PMC4960817 DOI: 10.1186/s12938-016-0210-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2016] [Accepted: 07/19/2016] [Indexed: 03/31/2023] Open
Abstract
Background Currently available perimeters have limited capabilities of performing measurements of the visual field in children. In addition, they do not allow for fully automatic measurement even in adults. The patient in each case (in any type of perimeter) has at his disposal a button which he uses to indicate that he has seen a light stimulus. Such restrictions have been offset in the presented new perimeter ZERK 1. Methods The paper describes a new type of automated, computerized perimeter designed to test the visual field in children and adults. The new perimeter and proprietary software enable to carry out tests automatically (without the need to press any button). The presented full version of the perimeter has been tested on a head phantom. The next steps will involve clinical trials and a comparison with measurements obtained using other types of perimeters. Results The perimeter ZERK 1 enables automatic measurement of the visual field in two axes (with a span of 870 mm and a depth of 525 mm) with an accuracy of not less than 1o (95 LEDs on each arm) at a typical position of the patient’s head. The measurement can be carried out in two modes: default/typical (lasting about 1 min), and accurate (lasting about 10 min). Compared with available and known types of perimeters, it has an open canopy, proprietary software and cameras tracking the eye movement, automatic control of fixation points, light stimuli with automatically preset light stimulus intensity in the following ranges: 550–700 mcd (red 620–630 nm), 1100–1400 mcd (green 515–530 nm), 200–400 mcd (blue 465–475 nm). Conclusions The paper presents a new approach to the construction of perimeters based on automatic tracking of the eye movements in response to stimuli. The unique construction of the perimeter and the software allow for its mobile use in the examination of children and bedridden patients.
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Affiliation(s)
- Robert Koprowski
- Department of Biomedical Computer Systems, Faculty of Computer Science and Materials Science, Institute of Computer Science, University of Silesia, ul. Będzińska 39, 41-200, Sosnowiec, Poland.
| | - Paweł Kasprowski
- Institute of Informatics, Silesian University of Technology, Akademicka 16, Gliwice, 44-100, Poland
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Koprowski R, Siedlecki D, Kasprzaz H, Wróbel Z. Rapid dynamic changes of the geometry of the anterior segment of the eye: A method of automatic spatial correction of a temporal sequence of OCT images. Comput Biol Med 2016; 72:132-7. [PMID: 27035864 DOI: 10.1016/j.compbiomed.2016.03.013] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2016] [Revised: 02/22/2016] [Accepted: 03/21/2016] [Indexed: 11/28/2022]
Abstract
INTRODUCTION Ocular dynamics is a very complex phenomenon which has not been well studied and understood yet. The way in which the eye responds to pulsatile changes of the blood pressure or even the electric activity of the heart depends not only on the mechanical properties of each individual structure of the eye globe, but also on its internal conditions, such as the degree of accommodation or intraocular pressure (IOP). METHOD This paper presents a method for correcting these undesired movements that could increase the sensitivity of the technique and its reliability in the estimation of pulsatile dynamics. The presented algorithm uses fully automatic detection of the structures that form an angle and fully automatic stabilisation of each individual image being a part of a captured sequence. RESULTS AND CONCLUSIONS The procedures described above were applied to the data of nine subjects taking part in the study. For all of them it turned out that the most representative area for fitting the images is the area of the irido-corneal angle apex. The presented algorithm significantly improved the spatial stability of the images in the temporal sequences of the tomographic images. The use of such correction makes it possible to distinguish the subtle pulsatile fluctuations of the ocular structures in the anterior segment, that can be associated with the activity of the retinal blood vessels and/or electric activity of the heart, from the undesired involuntary movements of the eye or the whole head.
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Affiliation(s)
- Robert Koprowski
- Computer Science Institute, The University of Silesia in Katowice, Bedzinska 39, 41200 Sosnowiec, Poland.
| | - Damian Siedlecki
- Institute of Physics, Wroclaw University of Technology, Wybrzeze Wyspianskiego 27, 50370 Wroclaw, Poland.
| | - Henryk Kasprzaz
- Institute of Physics, Wroclaw University of Technology, Wybrzeze Wyspianskiego 27, 50370 Wroclaw, Poland.
| | - Zygmunt Wróbel
- Computer Science Institute, The University of Silesia in Katowice, Bedzinska 39, 41200 Sosnowiec, Poland.
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Optical Coherence Tomography as a Tool for Ocular Dynamics Estimation. BIOMED RESEARCH INTERNATIONAL 2015; 2015:293693. [PMID: 26557659 PMCID: PMC4628777 DOI: 10.1155/2015/293693] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/28/2015] [Revised: 06/04/2015] [Accepted: 06/11/2015] [Indexed: 12/01/2022]
Abstract
Purpose. The aim of the study is to demonstrate that the ocular dynamics of the anterior chamber of the eye can be estimated quantitatively by means of optical coherence tomography (OCT). Methods. A commercial high speed, high resolution optical coherence tomographer was used. The sequences of tomographic images of the iridocorneal angle of three subjects were captured and each image from the sequence was processed in MATLAB environment in order to detect and identify the contours of the cornea and iris. The data on pulsatile displacements of the cornea and iris and the changes of the depth of the gap between them were retrieved from the sequences. Finally, the spectral analysis of the changes of these parameters was performed. Results. The results of the temporal and spectral analysis manifest the ocular microfluctuation that might be associated with breathing (manifested by 0.25 Hz peak in the power spectra), heart rate (1–1.5 Hz peak), and ocular hemodynamics (3.75–4.5 Hz peak). Conclusions. This paper shows that the optical coherence tomography can be used as a tool for noninvasive estimation of the ocular dynamics of the anterior segment of the eye, but its usability in diagnostics of the ocular hemodynamics needs further investigations.
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Enhancing Image Characteristics of Retinal Images of Aggressive Posterior Retinopathy of Prematurity Using a Novel Software, (RetiView). BIOMED RESEARCH INTERNATIONAL 2015; 2015:898197. [PMID: 26240830 PMCID: PMC4512601 DOI: 10.1155/2015/898197] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/14/2015] [Accepted: 05/18/2015] [Indexed: 11/17/2022]
Abstract
Purpose. To report pilot data from a novel image analysis software "RetiView," to highlight clinically relevant information in RetCam images of infants with aggressive posterior retinopathy of prematurity (APROP). Methods. Twenty-three imaging sessions of consecutive infants of Asian Indian origin with clinically diagnosed APROP underwent three protocols (Grey Enhanced (GE), Color Enhanced (CE), and "Vesselness Measure" (VNM)) of the software. The postprocessed images were compared to baseline data from the archived unprocessed images and clinical exam by the retinopathy of prematurity (ROP) specialist for anterior extent of the vessels, capillary nonperfusion zones (CNP), loops, hemorrhages, and flat neovascularization. Results. There was better visualization of tortuous loops in the GE protocol (56.5%); "bald" zones within the CNP zones (26.1%), hemorrhages (13%), and edge of the disease (34.8%) in the CE images; neovascularization on both GE and CE protocols (13% each); clinically relevant information in cases with poor pupillary dilatation (8.7%); anterior extent of vessels on the VNM protocol (13%) effecting a "reclassification" from zone 1 to zone 2 posterior. Conclusions. RetiView is a noninvasive and inexpensive method of customized image enhancement to detect clinically difficult characteristics in a subset of APROP images with a potential to influence treatment planning.
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Rabbani H, Allingham MJ, Mettu PS, Cousins SW, Farsiu S. Fully automatic segmentation of fluorescein leakage in subjects with diabetic macular edema. Invest Ophthalmol Vis Sci 2015; 56:1482-92. [PMID: 25634978 DOI: 10.1167/iovs.14-15457] [Citation(s) in RCA: 59] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
PURPOSE To create and validate software to automatically segment leakage area in real-world clinical fluorescein angiography (FA) images of subjects with diabetic macular edema (DME). METHODS Fluorescein angiography images obtained from 24 eyes of 24 subjects with DME were retrospectively analyzed. Both video and still-frame images were obtained using a Heidelberg Spectralis 6-mode HRA/OCT unit. We aligned early and late FA frames in the video by a two-step nonrigid registration method. To remove background artifacts, we subtracted early and late FA frames. Finally, after postprocessing steps, including detection and inpainting of the vessels, a robust active contour method was utilized to obtain leakage area in a 1500-μm-radius circular region centered at the fovea. Images were captured at different fields of view (FOVs) and were often contaminated with outliers, as is the case in real-world clinical imaging. Our algorithm was applied to these images with no manual input. Separately, all images were manually segmented by two retina specialists. The sensitivity, specificity, and accuracy of manual interobserver, manual intraobserver, and automatic methods were calculated. RESULTS The mean accuracy was 0.86 ± 0.08 for automatic versus manual, 0.83 ± 0.16 for manual interobserver, and 0.90 ± 0.08 for manual intraobserver segmentation methods. CONCLUSIONS Our fully automated algorithm can reproducibly and accurately quantify the area of leakage of clinical-grade FA video and is congruent with expert manual segmentation. The performance was reliable for different DME subtypes. This approach has the potential to reduce time and labor costs and may yield objective and reproducible quantitative measurements of DME imaging biomarkers.
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Affiliation(s)
- Hossein Rabbani
- Department of Ophthalmology, Duke University Medical Center, Durham, North Carolina, United States Medical Image and Signal Processing Research Center, Isfahan University of Medical Sciences, Isfahan, Iran
| | - Michael J Allingham
- Department of Ophthalmology, Duke University Medical Center, Durham, North Carolina, United States
| | - Priyatham S Mettu
- Department of Ophthalmology, Duke University Medical Center, Durham, North Carolina, United States
| | - Scott W Cousins
- Department of Ophthalmology, Duke University Medical Center, Durham, North Carolina, United States
| | - Sina Farsiu
- Department of Ophthalmology, Duke University Medical Center, Durham, North Carolina, United States Department of Biomedical Engineering, Duke University, Durham, North Carolina, United States
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Calibration and segmentation of skin areas in hyperspectral imaging for the needs of dermatology. Biomed Eng Online 2014; 13:113. [PMID: 25103039 PMCID: PMC4243423 DOI: 10.1186/1475-925x-13-113] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/02/2014] [Accepted: 07/25/2014] [Indexed: 11/10/2022] Open
Abstract
INTRODUCTION Among the currently known imaging methods, there exists hyperspectral imaging. This imaging fills the gap in visible light imaging with conventional, known devices that use classical CCDs. A major problem in the study of the skin is its segmentation and proper calibration of the results obtained. For this purpose, a dedicated automatic image analysis algorithm is proposed by the paper's authors. MATERIAL AND METHOD The developed algorithm was tested on data acquired with the Specim camera. Images were related to different body areas of healthy patients. The resulting data were anonymized and stored in the output format, source dat (ENVI File) and raw. The frequency λ of the data obtained ranged from 397 to 1030 nm. Each image was recorded every 0.79 nm, which in total gave 800 2D images for each subject. A total of 36'000 2D images in dat format and the same number of images in the raw format were obtained for 45 full hyperspectral measurement sessions. As part of the paper, an image analysis algorithm using known analysis methods as well as new ones developed by the authors was proposed. Among others, filtration with a median filter, the Canny filter, conditional opening and closing operations and spectral analysis were used. The algorithm was implemented in Matlab and C and is used in practice. RESULTS The proposed method enables accurate segmentation for 36'000 measured 2D images at the level of 7.8%. Segmentation is carried out fully automatically based on the reference ray spectrum. In addition, brightness calibration of individual 2D images is performed for the subsequent wavelengths. For a few segmented areas, the analysis time using Intel Core i5 CPU RAM M460@2.5GHz 4GB does not exceed 10 s. CONCLUSIONS The obtained results confirm the usefulness of the applied method for image analysis and processing in dermatological practice. In particular, it is useful in the quantitative evaluation of skin lesions. Such analysis can be performed fully automatically without operator's intervention.
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An easy method to differentiate retinal arteries from veins by spectral domain optical coherence tomography: retrospective, observational case series. BMC Ophthalmol 2014; 14:66. [PMID: 24884611 PMCID: PMC4037719 DOI: 10.1186/1471-2415-14-66] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2013] [Accepted: 04/28/2014] [Indexed: 11/10/2022] Open
Abstract
Background Recently it was shown that retinal vessel diameters could be measured using spectral domain optical coherence tomography (OCT). It has also been suggested that retinal vessels manifest different features on spectral domain OCT (SD-OCT) depending on whether they are arteries or veins. Our study was aimed to present a reliable SD-OCT assisted method of differentiating retinal arteries from veins. Methods Patients who underwent circular OCT scans centred at the optic disc using a Spectralis OCT (Heidelberg Engineering, Heidelberg, Germany) were retrospectively reviewed. Individual retinal vessels were identified on infrared reflectance (IR) images and given unique labels for subsequent grading. Vessel types (artery, vein or uncertain) assessed by IR and/or fluorescein angiography (FA) were referenced as ground truth. From OCT, presence/absence of the hyperreflective lower border reflectivity feature was assessed. Presence of this feature was considered indicative for retinal arteries and compared with the ground truth. Results A total of 452 vessels from 26 eyes of 18 patients were labelled and 398 with documented vessel type (302 by IR and 96 by FA only) were included in the study. Using SD-OCT, 338 vessels were assigned a final grade, of which, 86.4% (292 vessels) were classified correctly. Forty three vessels (15 arteries and 28 veins) that IR failed to differentiate were correctly classified by SD-OCT. When using only IR based ground truth for vessel type the SD-OCT based classification approach reached a sensitivity of 0.8758/0.9297, and a specificity of 0.9297/0.8758 for arteries/veins, respectively. Conclusion Our method was able to classify retinal arteries and veins with a commercially available SD-OCT alone, and achieved high classification performance. Paired with OCT based vessel measurements, our study has expanded the potential clinical implication of SD-OCT in evaluation of a variety of retinal and systemic vascular diseases.
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Koprowski R, Wilczyński S, Wróbel Z, Kasperczyk S, Błońska-Fajfrowska B. Automatic method for the dermatological diagnosis of selected hand skin features in hyperspectral imaging. Biomed Eng Online 2014; 13:47. [PMID: 24755183 PMCID: PMC4030029 DOI: 10.1186/1475-925x-13-47] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2014] [Accepted: 04/10/2014] [Indexed: 01/25/2023] Open
Abstract
INTRODUCTION Hyperspectral imaging has been used in dermatology for many years. The enrichment of hyperspectral imaging with image analysis broadens considerably the possibility of reproducible, quantitative evaluation of, for example, melanin and haemoglobin at any location in the patient's skin. The dedicated image analysis method proposed by the authors enables to automatically perform this type of measurement. MATERIAL AND METHOD As part of the study, an algorithm for the analysis of hyperspectral images of healthy human skin acquired with the use of the Specim camera was proposed. Images were collected from the dorsal side of the hand. The frequency λ of the data obtained ranged from 397 to 1030 nm. A total of 4'000 2D images were obtained for 5 hyperspectral images. The method proposed in the paper uses dedicated image analysis based on human anthropometric data, mathematical morphology, median filtration, normalization and others. The algorithm was implemented in Matlab and C programs and is used in practice. RESULTS The algorithm of image analysis and processing proposed by the authors enables segmentation of any region of the hand (fingers, wrist) in a reproducible manner. In addition, the method allows to quantify the frequency content in different regions of interest which are determined automatically. Owing to this, it is possible to perform analyses for melanin in the frequency range λE∈(450,600) nm and for haemoglobin in the range λH∈(397,500) nm extending into the ultraviolet for the type of camera used. In these ranges, there are 189 images for melanin and 126 images for haemoglobin. For six areas of the left and right sides of the little finger (digitus minimus manus), the mean values of melanin and haemoglobin content were 17% and 15% respectively compared to the pattern. CONCLUSIONS The obtained results confirmed the usefulness of the proposed new method of image analysis and processing in dermatology of the hand as it enables reproducible, quantitative assessment of any fragment of this body part. Each image in a sequence was analysed in this way in no more than 100 ms using Intel Core i5 CPU M460 @2.5 GHz 4 GB RAM.
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Affiliation(s)
- Robert Koprowski
- Department of Biomedical Computer Systems, University of Silesia, Faculty of Computer Science and Materials Science, Institute of Computer Science, ul, Będzińska 39, Sosnowiec 41-200, Poland.
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Koprowski R, Rzendkowski M, Wróbel Z. Automatic method of analysis of OCT images in assessing the severity degree of glaucoma and the visual field loss. Biomed Eng Online 2014; 13:16. [PMID: 24528923 PMCID: PMC3928579 DOI: 10.1186/1475-925x-13-16] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2014] [Accepted: 02/10/2014] [Indexed: 11/12/2022] Open
Abstract
Introduction In many practical aspects of ophthalmology, it is necessary to assess the severity degree of glaucoma in cases where, for various reasons, it is impossible to perform a visual field test - static perimetry. These are cases in which the visual field test result is not reliable, e.g. advanced AMD (Age-related Macular Degeneration). In these cases, there is a need to determine the severity of glaucoma, mainly on the basis of optic nerve head (ONH) and retinal nerve fibre layer (RNFL) structure. OCT is one of the diagnostic methods capable of analysing changes in both, ONH and RNFL in glaucoma. Material and method OCT images of the eye fundus of 55 patients (110 eyes) were obtained from the SOCT Copernicus (Optopol Tech. SA, Zawiercie, Poland). The authors proposed a new method for automatic determination of the RNFL (retinal nerve fibre layer) and other parameters using: mathematical morphology and profiled segmentation based on morphometric information of the eye fundus. A quantitative ratio of the quality of the optic disk and RNFL – BGA (biomorphological glaucoma advancement) was also proposed. The obtained results were compared with the results obtained from a static perimeter. Results Correlations between the known parameters of the optic disk as well as those suggested by the authors and the results obtained from static perimetry were calculated. The result of correlation with the static perimetry was 0.78 for the existing methods of image analysis and 0.86 for the proposed method. Practical usefulness of the proposed ratio BGA and the impact of the three most important features on the result were assessed. The following results of correlation for the three proposed classes were obtained: cup/disk diameter 0.84, disk diameter 0.97 and the RNFL 1.0. Thus, analysis of the supposed visual field result in the case of glaucoma is possible based only on OCT images of the eye fundus. Conclusions The calculations and analyses performed with the proposed algorithm and BGA ratio confirm that it is possible to calculate supposed mean defect (MD) of the visual field test based on OCT images of the eye fundus.
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Affiliation(s)
- Robert Koprowski
- Department of Biomedical Computer Systems, Faculty of Computer Science and Materials Science, Institute of Computer Science, University of Silesia, ul, Będzińska 39, Sosnowiec 41-200, Poland.
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Self-adaptive Biometric Classifier Working on the Reduced Dataset. LECTURE NOTES IN COMPUTER SCIENCE 2014. [DOI: 10.1007/978-3-319-07617-1_34] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
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Koprowski R, Teper S, Wróbel Z, Wylegala E. Automatic analysis of selected choroidal diseases in OCT images of the eye fundus. Biomed Eng Online 2013; 12:117. [PMID: 24224964 PMCID: PMC3842656 DOI: 10.1186/1475-925x-12-117] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2013] [Accepted: 11/08/2013] [Indexed: 12/27/2022] Open
Abstract
Introduction This paper describes a method for automatic analysis of the choroid in OCT images of the eye fundus in ophthalmology. The problem of vascular lesions occurs e.g. in a large population of patients having diabetes or macular degeneration. Their correct diagnosis and quantitative assessment of the treatment progress are a critical part of the eye fundus diagnosis. Material and method The study analysed about 1’000 OCT images acquired using SOCT Copernicus (Optopol Tech. SA, Zawiercie, Poland). The proposed algorithm for image analysis enabled to analyse the texture of the choroid portion located beneath the RPE (Retinal Pigment Epithelium) layer. The analysis was performed using the profiled algorithm based on morphological analysis and texture analysis and a classifier in the form of decision trees. Results The location of the centres of gravity of individual objects present in the image beneath the RPE layer proved to be important in the evaluation of different types of images. In addition, the value of the standard deviation and the number of objects in a scene were equally important. These features enabled classification of three different forms of the choroid that were related to retinal pathology: diabetic edema (the classification gave accuracy ACC1 = 0.73), ischemia of the inner retinal layers (ACC2 = 0.83) and scarring fibro vascular tissue (ACC3 = 0.69). For the cut decision tree the results were as follows: ACC1 = 0.76, ACC2 = 0.81, ACC3 = 0.68. Conclusions The created decision tree enabled to obtain satisfactory results of the classification of three types of choroidal imaging. In addition, it was shown that for the assumed characteristics and the developed classifier, the location of B-scan does not significantly affect the results. The image analysis method for texture analysis presented in the paper confirmed its usefulness in choroid imaging. Currently the application is further studied in the Clinical Department of Ophthalmology in the District Railway Hospital in Katowice, Medical University of Silesia, Poland.
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Affiliation(s)
- Robert Koprowski
- Department of Biomedical Computer Systems, University of Silesia, Faculty of Computer Science and Materials Science, Institute of Computer Science, ul, Będzińska 39, Sosnowiec 41-200, Poland.
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Koprowski R, Wróbel Z, Nowinska A, Wylegala E. Quantitative measurement of pseudoexfoliation in the anterior segment of the eye performed in visible light. Biomed Eng Online 2013; 12:74. [PMID: 23879837 PMCID: PMC3726400 DOI: 10.1186/1475-925x-12-74] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2013] [Accepted: 07/22/2013] [Indexed: 12/04/2022] Open
Abstract
Introduction Pseudoexfoliation syndrome (PEX) is a systemic disease involving the accumulation of pathological material deposits in the tissues of the anterior segment of the eye. The problem of modern ophthalmology is a quantitative assessment of the severity of PEX in the diagnosis and evaluation of the treatment progress in patients. Material and method For the purposes of this study, 52 images of the anterior segment of the eye with the resolution of M × N = 1280 × 960 pixels were obtained in jpg format using the slit lamp CSO 450-SL. The patients were aged 50–80 and were recruited from Poland. All patients who participated in the study provided written informed consent after explanation of the nature and possible consequences of the study. The image analysis method proposed by the authors contains the calculation of the direction field, setting a straight perpendicular line passing through each pixel of the edge of the pupil, the calculation of the intersection of straight lines in order to determine the central point of the pupil position, the detection of the contour of PEX and the outer border of the iris with the use of the polar coordinate system. All analyzed parameters were set automatically with one exception parameter chosen manually depending on the slit lamp type. Results A fully automatic measurement of PEX was carried out with the proposed method. Quantitative results enable to perform reproducible tests independently of the research centre. Owing to the image analysis method proposed by the authors, it is possible to obtain results in no more than 1 second on the Intel Core 2 Quad CPU 2.50 GHz with a measurement error below 3%. Other known methods of image analysis and processing that are compared in this paper give results with a greater error (4-35%) which depends on the degree of magnification (×6, ×16, ×20) and are not fully automatic. Conclusions The methods of image analysis and processing enable a quantitative, repeatable and automatic measurement of the severity and progress of PEX syndrome. They support medical diagnosis and automatic archiving of results.
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Zhang L, Qian X, Zhang K, Cui Q, Zhao Q, Liu Z. Three-dimensional reconstruction of blood vessels in the rabbit eye by X-ray phase contrast imaging. Biomed Eng Online 2013; 12:30. [PMID: 23577753 PMCID: PMC3642019 DOI: 10.1186/1475-925x-12-30] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2013] [Accepted: 04/02/2013] [Indexed: 01/22/2023] Open
Abstract
Background A clear understanding of the blood vessels in the eye is helpful in the diagnosis and treatment of ophthalmic diseases, such as glaucoma. Conventional techniques such as micro-CT imaging and histology are not sufficiently accurate to identify the vessels in the eye, because their diameter is just a few microns. The newly developed medical imaging technology, X-ray phase-contrast imaging (XPCI), is able to distinguish the structure of the vessels in the eye. In this study, XPCI was used to identify the internal structure of the blood vessels in the eye. Methods After injection with barium sulfate via the ear border artery, an anesthetized rabbit was killed and its eye was fixed in vitro in 10% formalin solution. We acquired images using XPCI at the Shanghai Synchrotron Radiation Facility. The datasets were converted into slices by filtered back-projection (FBP). An angiographic score was obtained as a parameter to quantify the density of the blood vessels. A three-dimensional (3D) model of the blood vessels was then established using Amira 5.2 software. Results With XPCI, blood vessels in the rabbit eye as small as 18 μm in diameter and a sixth of the long posterior ciliary artery could be clearly distinguished. In the 3D model, we obtained the level 4 branch structure of vessels in the fundus. The diameters of the arteria centralis retinae and its branches are about 200 μm, 110 μm, 95 μm, 80 μm and 40 μm. The diameters of the circulus arteriosus iridis major and its branches are about 210 μm, 70 μm and 30 μm. Analysis of vessel density using the angiographic score showed that the blood vessels had maximum density in the fundus and minimum density in the area anterior to the equator (scores 0.27 ± 0.029 and 0.16 ± 0.032, respectively). We performed quantitative angiographic analysis of the blood vessels to further investigate the density of the vessels. Conclusions XPCI provided a feasible means to determine the structure of the blood vessels in the eye. We were able to determine the diameters and morphological characteristics of the vessels from both 2D images and the 3D model. By analyzing the images, we obtained measurements of the density distribution of the microvasculature, and this approach may provide valuable reference information prior to glaucoma filtration surgery.
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