Sina Farsiu

Biomedical Engineering

Director of Master's Studies, Anderson-Rupp Professor of BME

Sina Farsiu Profile Photo

Research Themes

Biomedical & Health Data Sciences, Biomedical Imaging & Biophotonics

Research Interests

Focused on medical imaging and machine learning to improve the overall health and vision outcome of patients with ocular and neurological diseases (e.g., age-related macular degeneration, diabetic retinopathy, Alzheimer, and ALS) through earlier and personalized therapy.

Bio

I am the director of the Vision and Image Processing (VIP) Laboratory. Along with my colleagues, we investigate how to improve early diagnostic methods and find new imaging biomarkers of ocular and neurological diseases in adults (e.g. age-related macular degeneration, diabetic retinopathy, Glaucoma, Alzheimer) and children (e.g. retinopathy or prematurity). We also develop automatic artificial intelligence machine learning and deep learning algorithms to detect/segment/quantify anatomical/pathological structures seen on medical images.

On another front, we study efficient signal processing based methods to overcome the theoretical and practical limitations that constrain the achievable resolution of any imaging device. Our approach, which is based on adaptive extraction and robust fusion of relevant information from the expensive and sophisticated as well as simple and cheap sensors, has found wide applications in improving the quality of imaging systems such as ophthalmic SD-OCT, digital X-ray mammography, electronic and optical microscopes, and commercial digital camcorders. We are also interested in pursuing statistical signal processing based projects, including super-resolution, demosaicing, deblurring, denoising, motion estimation, compressive sensing/adaptive sampling, and sensor fusion.

Education

B.S. Sharif University of Technology (Iran), 1999
M.S. University of Tehran (Iran), 2001

Trainings & Certifications

Research Assistant, ELECTRICAL ENGINEERING (2001 - 2005) University of California, Santa Cruz
Postdoctoral Scholar, ELECTRICAL ENGINEERING (2006 - 2007) University of California, Santa Cruz

Positions

Anderson-Rupp Professor of Biomedical Engineering
Professor in the Department of Biomedical Engineering
Professor in the Department of Electrical and Computer Engineering
Professor in Computer Science
Faculty Network Member of the Duke Institute for Brain Sciences

Courses Taught

ECE 899: Special Readings in Electrical Engineering
BME 792: Continuation of Graduate Independent Study
BME 791: Graduate Independent Study
BME 789: Internship in Biomedical Engineering
BME 544: Digital Image Processing (GE, IM)
BME 494: Projects in Biomedical Engineering (GE)
BME 493: Projects in Biomedical Engineering (GE)

Publications

Taha AT, Shen LL, Diaz A, Chahal N, Saroya J, Sun M, et al. Association of Hyperautofluorescence Signals with Geographic Atrophy Progression in the METformin for the MINimization of Geographic Atrophy Progression Trial (Accepted). Ophthalmology Science. 2025 Jan 1;5(1).
Soltanian-Zadeh S, Kovalick K, Aghayee S, Miller D, Liu Z, Hammer D, et al. Identifying retinal pigment epithelium cells in adaptive optics–optical coherence tomography images with partial annotations and superhuman accuracy. Biomedical Optics Express. 2024 Oct 30;
Ruiz-Lozano RE, Soifer M, Zemborain ZZ, Azar NS, Quiroga-Garza ME, Murillo S, et al. Deep-learning based analysis of in-vivo confocal microscopy images of the subbasal corneal nerve plexus' inferior whorl in patients with neuropathic corneal pain and dry eye disease. Ocul Surf. 2024 Aug 2;34:241–6.
Zhang F, Kovalick K, Raghavendra A, Soltanian-Zadeh S, Farsiu S, Hammer DX, et al. In vivo imaging of human retinal ganglion cells using optical coherence tomography without adaptive optics. Biomedical optics express. 2024 Aug;15(8):4675–88.
Liu Z, Aghayee S, Soltanian-Zadeh S, Kovalick K, Agrawal A, Saeedi O, et al. Quantification of Human Photoreceptor-Retinal Pigment Epithelium Macular Topography with Adaptive Optics-Optical Coherence Tomography. Diagnostics (Basel, Switzerland). 2024 Jul;14(14):1518.
Li G, van Batenburg-Sherwood J, Safa BN, Fraticelli Guzmán NS, Wilson A, Bahrani Fard MR, et al. Aging and intraocular pressure homeostasis in mice. Aging Cell. 2024 Jul;23(7):e14160.
Lu M-C, Deng C, Greenwald MF, Farsiu S, Prajna NV, Nallasamy N, et al. Automatic Classification of Slit-Lamp Photographs by Imaging Illumination. Cornea. 2024 Apr;43(4):419–24.
Wang RK, Farsiu S. Biomedical Optics Express recognizes the 2023 best paper prize winners: editorial. Biomedical optics express. 2024 Feb;15(2):1148–9.
Michalak SM, Mangalesh S, Chen Y, Shen LL, Tai V, Winter K, et al. Longitudinal Choroidal Development in Preterm Infants. Ophthalmol Sci. 2024;4(1):100359.
Li G, van Batenburg-Sherwood J, Safa BN, Fraticelli Guzmán NS, Wilson A, Bahrani Fard MR, et al. Aging and intraocular pressure homeostasis in mice. bioRxiv. 2023 Dec 7;
Hicks PM, Singh K, Prajna NV, Lu M-C, Niziol LM, Greenwald MF, et al. Quantifying Clinicians' Diagnostic Uncertainty When Making Initial Treatment Decisions for Microbial Keratitis. Cornea. 2023 Nov;42(11):1408–13.
Zemborain ZZ, Soifer M, Azar NS, Murillo S, Mousa HM, Perez VL, et al. Open-Source Automated Segmentation of Neuronal Structures in Corneal Confocal Microscopy Images of the Subbasal Nerve Plexus With Accuracy on Par With Human Segmentation. Cornea. 2023 Oct;42(10):1309–19.
Loo J, Teo KYC, Vyas CH, Jordan-Yu JMN, Juhari AB, Jaffe GJ, et al. Joint Multimodal Deep Learning-based Automatic Segmentation of Indocyanine Green Angiography and OCT Images for Assessment of Polypoidal Choroidal Vasculopathy Biomarkers. Ophthalmology science. 2023 Sep;3(3):100292.
Sazhnyev Y, Sin T-N, Ma A, Chang E, Huynh L, Roszak K, et al. Choroidal Changes in Rhesus Macaques in Aging and Age-Related Drusen. Investigative ophthalmology & visual science. 2023 Sep;64(12):44.
Yang Z, Farsiu S. Directional Connectivity-based Segmentation of Medical Images. Proceedings IEEE Computer Society Conference on Computer Vision and Pattern Recognition. 2023 Jun;2023:11525–35.
Rasti R, Biglari A, Rezapourian M, Yang Z, Farsiu S. RetiFluidNet: A Self-Adaptive and Multi-Attention Deep Convolutional Network for Retinal OCT Fluid Segmentation. IEEE transactions on medical imaging. 2023 May;42(5):1413–23.
Soltanian-Zadeh S, Liu Z, Liu Y, Lassoued A, Cukras CA, Miller DT, et al. Deep learning-enabled volumetric cone photoreceptor segmentation in adaptive optics optical coherence tomography images of normal and diseased eyes. Biomedical optics express. 2023 Feb;14(2):815–33.
Wang RK, Farsiu S. Biomedical Optics Express recognizes the best paper prize winners: editorial. Biomedical optics express. 2023 Feb;14(2):985–6.
Hagan K, Park J, DuBose TB, Soltanian-Zadeh S, Dhalla AH, Kuo AN, et al. Dual modality handheld adaptive optics optical coherence tomography probe for in vivo 3-D photoreceptor imaging. In: Progress in Biomedical Optics and Imaging - Proceedings of SPIE. 2023.
Lad EM, Duncan JL, Liang W, Maguire MG, Ayala AR, Audo I, et al. Baseline Microperimetry and OCT in the RUSH2A Study: Structure-Function Association and Correlation With Disease Severity. Am J Ophthalmol. 2022 Dec;244:98–116.
Abraham JR, Jaffe GJ, Kaiser PK, Chiu SJ, Loo J, Farsiu S, et al. Impact of Baseline Quantitative OCT Features on Response to Risuteganib for the Treatment of Dry Age-Related Macular Degeneration: The Importance of Outer Retinal Integrity. Ophthalmol Retina. 2022 Nov;6(11):1019–27.
Loo J, Jaffe GJ, Duncan JL, Birch DG, Farsiu S. VALIDATION OF A DEEP LEARNING-BASED ALGORITHM FOR SEGMENTATION OF THE ELLIPSOID ZONE ON OPTICAL COHERENCE TOMOGRAPHY IMAGES OF AN USH2A-RELATED RETINAL DEGENERATION CLINICAL TRIAL. Retina. 2022 Jul 1;42(7):1347–55.
Zhou KC, McNabb RP, Qian R, Degan S, Dhalla A-H, Farsiu S, et al. Computational 3D microscopy with optical coherence refraction tomography. Optica. 2022 Jun 20;9(6):593–601.
Lad E, Sleiman K, Banks DL, Hariharan S, Clemons T, Herrmann R, et al. Machine learning OCT predictors of progression from intermediate age-related macular degeneration to geographic atrophy and vision loss. Ophthalmol Sci. 2022 Jun;2(2).
Zhou K, McNabb R, Qian R, Dhalla A-H, Degan S, Farsiu S, et al. Data from: Computational 3D microscopy with optical coherence refraction tomography. 2022.
Loo J, Cai CX, Choong J, Chew EY, Friedlander M, Jaffe GJ, et al. Deep learning-based classification and segmentation of retinal cavitations on optical coherence tomography images of macular telangiectasia type 2. The British journal of ophthalmology. 2022 Mar;106(3):396–402.
Wang RK, Farsiu S. Editorial from the New Editor-in-Chief and the New Deputy Editor. Biomedical optics express. 2022 Feb;13(2):980–1.
Zemborain Z, Soifer M, Azar N, Mousa HM, Perez VL, Farsiu S. Deep Learning-based Segmentation of Nerves and Pathological Structures in Corneal Confocal Microscopy Images of the Subbasal Nerve Plexus. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2022.
Yiu G, Wang J, Li Y, Choy K, Farsiu S, Huynh L, et al. Rhesus macaques with soft drusen share susceptibility genes with age-related macular degeneration in humans. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2022.
Hagan K, Park J, DuBose T, Soltanian-Zadeh S, Waterman G, Dhalla A-H, et al. In vivo recumbent photoreceptor imaging using the first handheld adaptive optics optical coherence tomography probe. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2022.
Choy KC, Li G, Stamer WD, Farsiu S. Open-source deep learning-based automatic segmentation of mouse Schlemm's canal in optical coherence tomography images. Exp Eye Res. 2022 Jan;214:108844.
Hasan A, Elkhalil K, Ng Y, Pereira JM, Farsiu S, Blanchet J, et al. Modeling Extremes with d-max-decreasing Neural Networks. In: Proceedings of Machine Learning Research. 2022. p. 759–68.
Hasan A, Pereira JM, Farsiu S, Tarokh V. Identifying Latent Stochastic Differential Equations. IEEE Transactions on Signal Processing. 2022 Jan 1;70:89–104.
Yang Z, Soltanian-Zadeh S, Farsiu S. BiconNet: An Edge-preserved Connectivity-based Approach for Salient Object Detection. Pattern recognition. 2022 Jan;121:108231.
Hasan A, Elkhalil K, Ng Y, Pereira JM, Farsiu S, Blanchet J, et al. Modeling Extremes with d-max-decreasing Neural Networks. In: Proceedings of the 38th Conference on Uncertainty in Artificial Intelligence, UAI 2022. 2022. p. 759–68.
Zhou KC, Dhalla A-H, McNabb RP, Qian R, Farsiu S, Izatt JA. High-speed multiview imaging approaching 4pi steradians using conic section mirrors: theoretical and practical considerations. Journal of the Optical Society of America A. 2021 Dec 1;38(12):1810–1810.
Zhou KC, Dhalla AH, McNabb RP, Qian R, Farsiu S, Izatt JA. High-speed multiview imaging approaching 4pi steradians using conic section mirrors: Theoretical and practical considerations. Journal of the Optical Society of America A: Optics and Image Science, and Vision. 2021 Dec 1;38(12):1810–22.
Zhou KC, Farsiu S, Izatt JA. Optical Coherence Refraction Tomography. Optics and Photonics News. 2021 Nov 1;32(11):30–7.
Loo J, Woodward MA, Prajna V, Kriegel MF, Pawar M, Khan M, et al. Open-Source Automatic Biomarker Measurement on Slit-Lamp Photography to Estimate Visual Acuity in Microbial Keratitis. Translational vision science & technology. 2021 Oct;10(12):2.
Yang Z, Soltanian-Zadeh S, Chu KK, Zhang H, Moussa L, Watts AE, et al. Connectivity-based deep learning approach for segmentation of the epithelium in in vivo human esophageal OCT images. Biomedical optics express. 2021 Oct;12(10):6326–40.
Kim DY, Loo J, Farsiu S, Jaffe GJ. COMPARISON OF SINGLE DRUSEN SIZE ON COLOR FUNDUS PHOTOGRAPHY AND SPECTRAL-DOMAIN OPTICAL COHERENCE TOMOGRAPHY. Retina. 2021 Aug 1;41(8):1715–22.
Bao Y, Soltanian-Zadeh S, Farsiu S, Gong Y. Segmentation of Neurons from Fluorescence Calcium Recordings Beyond Real-time. Nature machine intelligence. 2021 Jul;3(7):590–600.
Sastry A, Li JD, Raynor W, Viehland C, Song Z, Xu L, et al. Microscope-Integrated OCT-Guided Volumetric Measurements of Subretinal Blebs Created by a Suprachoroidal Approach. Transl Vis Sci Technol. 2021 Jun 1;10(7):24.
Mangalesh S, Sarin N, McGeehan B, Prakalapakorn SG, Tran-Viet D, Cotten CM, et al. Preterm Infant Stress During Handheld Optical Coherence Tomography vs Binocular Indirect Ophthalmoscopy Examination for Retinopathy of Prematurity. JAMA Ophthalmol. 2021 May 1;139(5):567–74.
Soltanian-Zadeh S, Kurokawa K, Liu Z, Zhang F, Saeedi O, Hammer DX, et al. Weakly supervised individual ganglion cell segmentation from adaptive optics OCT images for glaucomatous damage assessment. Optica. 2021 May;8(5):642–51.
Pasricha MV, Tai V, Sleiman K, Winter K, Chiu SJ, Farsiu S, et al. Local Anatomic Precursors to New-Onset Geographic Atrophy in Age-Related Macular Degeneration as Defined on OCT. Ophthalmol Retina. 2021 May;5(5):396–408.
Li G, Lee C, Read AT, Wang K, Ha J, Kuhn M, et al. Anti-fibrotic activity of a rho-kinase inhibitor restores outflow function and intraocular pressure homeostasis. Elife. 2021 Mar 30;10.
Hasan A, Elkhalil K, Ng Y, Pereira JM, Farsiu S, Blanchet JH, et al. Modeling Extremes with d-max-decreasing Neural Networks. 2021 Feb 17;
Mukkamala LK, Avaylon J, Welch RJ, Yazdanyar A, Emami-Naeini P, Wong S, et al. Intraoperative Retinal Changes May Predict Surgical Outcomes After Epiretinal Membrane Peeling. Translational vision science & technology. 2021 Feb;10(2):36.
Cai CX, Choong J, Farsiu S, Chiu SJ, Chew EY, Jaffe GJ. Retinal cavitations in macular telangiectasia type 2 (MacTel): longitudinal structure-function correlations. The British journal of ophthalmology. 2021 Jan;105(1):109–12.
Elkhalil K, Hasan A, Ding J, Farsiu S, Tarokh V. Fisher Auto-Encoders. 24TH INTERNATIONAL CONFERENCE ON ARTIFICIAL INTELLIGENCE AND STATISTICS (AISTATS). 2021;130:352–60.
Zhou KC, Qian R, Dhalla AH, Farsiu S, Izatt JA. Incoherent 3D k-space synthesis with volumetric optical coherence refraction tomography. In: Optics InfoBase Conference Papers. 2021.
Elkhalil K, Hasan A, Ding J, Farsiu S, Tarokh V. Fisher Auto-Encoders. In: Proceedings of Machine Learning Research. 2021. p. 352–60.
Lad EM, Liang W, Jaffe GJ, Deng Z, Loo J, Mukherjee D, et al. The RUSH2A study: Baseline microperimetry and SD-OCT measures. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2021.
Li G, Choy K, Hake K, Farsiu S, Ethier C, Stamer D. Effects of phenylephrine on proximal and distal conventional outflow vessels in living animals. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2021.
Song Z, Xu L, Wang J, Rasti R, Sastry A, Li JD, et al. Lightweight Learning-Based Automatic Segmentation of Subretinal Blebs on Microscope-Integrated Optical Coherence Tomography Images. Am J Ophthalmol. 2021 Jan;221:154–68.
Loo J, Kriegel MF, Tuohy MM, Kim KH, Prajna V, Woodward MA, et al. Open-Source Automatic Segmentation of Ocular Structures and Biomarkers of Microbial Keratitis on Slit-Lamp Photography Images Using Deep Learning. IEEE journal of biomedical and health informatics. 2021 Jan;25(1):88–99.
Zhou KC, Cooke C, Park J, Qian R, Horstmeyer R, Izatt JA, et al. Mesoscopic photogrammetry with an unstabilized phone camera. In: Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition. 2021. p. 7531–41.
Zhou KC, Qian R, Dhalla AH, Farsiu S, Izatt JA. Unified k-space theory of optical coherence tomography. Advances in Optics and Photonics. 2021 Jan 1;13(2):462–514.
Song A, Ortiz P, Draelos M, Schuman S, Jaffe G, Farsiu S, et al. Combining artificial intelligence and robotics: a semi-automated optical coherence tomography-based approach for posterior eye disease screening. In Invest. Ophthalmol. Vis. Sci.; 2021. p. 120–120.
Avaylon J, Mukkamala L, Welch R, Yazdanyar A, Emami-Naeini P, Wong S, et al. Intraoperative Retinal Changes May Predict Surgical Outcomes After Epiretinal Membrane Peeling. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2021.
Zhou KC, Cooke C, Park J, Qian R, Horstmeyer R, Izatt JA, et al. Mesoscopic photogrammetry with an unstabilized phone camera. CVPR 2021. 2020 Dec 10;
Liu TYA, Farsiu S, Ting DS. Generative adversarial networks to predict treatment response for neovascular age-related macular degeneration: interesting, but is it useful? The British journal of ophthalmology. 2020 Dec;104(12):1629–30.
Kriegel MF, Loo J, Farsiu S, Prajna V, Tuohy M, Kim KH, et al. Measurement Reliability for Keratitis Morphology. Cornea. 2020 Dec;39(12):1503–9.
Duncan JL, Liang W, Maguire MG, Audo I, Ayala AR, Birch DG, et al. Baseline Visual Field Findings in the RUSH2A Study: Associated Factors and Correlation With Other Measures of Disease Severity. Am J Ophthalmol. 2020 Nov;219:87–100.
Hagan K, DuBose T, Cunefare D, Waterman G, Park J, Simmerer C, et al. Multimodal handheld adaptive optics scanning laser ophthalmoscope. Opt Lett. 2020 Sep 1;45(17):4940–3.
Li G, Schmitt H, Johnson WM, Lee C, Navarro I, Cui J, et al. Integral role for lysyl oxidase-like-1 in conventional outflow tissue function and behavior. FASEB J. 2020 Aug;34(8):10762–77.
Tran TM, Kim S, Lin KH, Chung SH, Park S, Sazhnyev Y, et al. Quantitative Fundus Autofluorescence in Rhesus Macaques in Aging and Age-Related Drusen. Investigative ophthalmology & visual science. 2020 Jul;61(8):16.
Li G, De Ieso ML, Farsiu S, Stamer D. Effects of aging on conventional outflow anatomy and physiology in C57BL/6 mice. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Huang O, Long W, Bottenus N, Lerendegui M, Trahey GE, Farsiu S, et al. MimickNet, Mimicking Clinical Image Post- Processing Under Black-Box Constraints. IEEE transactions on medical imaging. 2020 Jun;39(6):2277–86.
Loo J, Clemons TE, Chew EY, Friedlander M, Jaffe GJ, Farsiu S. Beyond Performance Metrics: Automatic Deep Learning Retinal OCT Analysis Reproduces Clinical Trial Outcome. In: Ophthalmology. 2020. p. 793–801.
Song G, Steelman ZA, Finkelstein S, Yang Z, Martin L, Chu KK, et al. Multimodal Coherent Imaging of Retinal Biomarkers of Alzheimer's Disease in a Mouse Model. Sci Rep. 2020 May 13;10(1):7912.
Hasan A, Pereira JM, Ravier R, Farsiu S, Tarokh V. Learning Partial Differential Equations from Data Using Neural Networks. ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings. 2020 May 1;2020-May:3962–6.
Zhou KC, Qian R, Farsiu S, Izatt JA. Spectroscopic optical coherence refraction tomography. Optics letters. 2020 Apr;45(7):2091–4.
Woertz EN, Omoba BS, Dunn TM, Chiu SJ, Farsiu S, Strul S, et al. Assessing Ganglion Cell Layer Topography in Human Albinism Using Optical Coherence Tomography. Investigative ophthalmology & visual science. 2020 Mar;61(3):36.
Yiu G, Chung SH, Mollhoff IN, Wang Y, Nguyen UT, Shibata B, et al. Long-term Evolution and Remodeling of Soft Drusen in Rhesus Macaques. Investigative ophthalmology & visual science. 2020 Feb;61(2):32.
Rasti R, Allingham MJ, Mettu PS, Kavusi S, Govind K, Cousins SW, et al. Deep learning-based single-shot prediction of differential effects of anti-VEGF treatment in patients with diabetic macular edema. Biomed Opt Express. 2020 Feb 1;11(2):1139–52.
Chen XD, Omari A, Hwang M, Kwark L, Dakki N, Farsiu S, et al. Treated PDR Reveals Age-Appropriate Vision Deterioration But Distorted Retinal Organization. Translational vision science & technology. 2020 Feb;9(3):3.
Li G, De Ieso ML, Farsiu S, Stamer D. Effects of aging on conventional outflow anatomy and physiology in C57BL/6 mice. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Soltanian-Zadeh S, Kurokawa K, Liu Z, Hammer DX, Miller DT, Farsiu S. Fully automatic quantification of individual ganglion cells from AO-OCT volumes via weakly supervised learning. In: Progress in Biomedical Optics and Imaging - Proceedings of SPIE. 2020.
Dhalla A-H, Park J, Viehland C, Farsiu S, Kuo AN, Izatt JA. Low-cost, portable color confocal scanning laser ophthalmoscope for remote screening and telemedicine applications. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Song A, Liu A, Li G, Li L, Farsiu S, Stamer D, et al. Mouse corneal transplant evaluation with topography and pachymetry using OCT. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Zhou KC, Qian R, Farsiu S, Izatt JA. Resolution enhancement and speckle reduction in coherence imaging: A k-space model of optical coherence refraction tomography (OCRT). In: Optics InfoBase Conference Papers. 2020.
Farsiu S, Loo J, Duncan JL, Birch DG, Jaffe GJ. Deep learning-based automatic segmentation of intact ellipsoid zone area on optical coherence tomography images of USH2A-related retinal degeneration. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Hasan A, Deng Z, Loo J, Mukherjee D, Duncan JL, Birch DG, et al. Meta-learning approach to automatically register multivendor retinal images. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Loo J, Cai CX, Chew E, Friedlander M, Jaffe GJ, Farsiu S. Deep learning-based automatic segmentation of retinal cavitations on OCT images of MacTel2. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Ethier CR, Li G, Lee C, Read AT, Wang K, Navarro ID, et al. Netarsudil (NT) restores trabecular meshwork (TM) function/stiffness and reduces IOP in steroid-induced ocular hypertension (OHT). In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Soltanian-Zadeh S, Liu Z, Villanueva R, Saeedi O, Kurokawa K, Jung HW, et al. Automatic cellular level differentiation of glaucomatous and healthy eyes via deep learning-based adaptive optics OCT analysis. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Onal S, Loo J, Quinones VLP, Tan N, Cherukury M, Farsiu S, et al. In-vivo quantitative analysis of pterygium volume using anterior segment optical coherence tomography imaging. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. 2020.
Hasan A, Pereira JM, Ravier RJ, Farsiu S, Tarokh V. Learning Partial Differential Equations From Data Using Neural Networks. In: ICASSP. IEEE; 2020. p. 3962–6.
Hagan K, Dubose TB, Cunefare D, Simmerer C, Waterman G, Park J, et al. Wavefront sensorless multimodal handheld adaptive optics scanning laser ophthalmoscope for in vivo imaging of human retinal cones. In: Progress in Biomedical Optics and Imaging - Proceedings of SPIE. 2020.
Wang D, Xu S, Pant P, Redington E, Soltanian-Zadeh S, Farsiu S, et al. Hybrid light-sheet and light-field microscope for high resolution and large volume neuroimaging. Biomedical optics express. 2019 Dec;10(12):6595–610.
Zhou KC, Qian R, Degan S, Farsiu S, Izatt JA. Optical coherence refraction tomography. Nature photonics. 2019 Nov;13(11):794–802.
Yi J, Dubra A, Farsiu S. Special Section Guest Editorial: Advances in Retinal Imaging. Neurophotonics. 2019 Oct;6(4):041101.
Huang O, Long W, Bottenus N, Trahey GE, Farsiu S, Palmeri ML. MimickNet, Matching Clinical Post-Processing under Realistic Black-Box Constraints. In: IEEE International Ultrasonics Symposium, IUS. 2019. p. 1145–51.
Huang O, Bottenus N, Palmeri M, Trahey G, Long W, Farsiu S. UltraDuke Version 1. 2019.
Cunefare D, Huckenpahler AL, Patterson EJ, Dubra A, Carroll J, Farsiu S. RAC-CNN: multimodal deep learning based automatic detection and classification of rod and cone photoreceptors in adaptive optics scanning light ophthalmoscope images. Biomedical optics express. 2019 Aug;10(8):3815–32.
Alabduljalil T, Westall CA, Reginald A, Farsiu S, Chiu SJ, Arshavsky A, et al. Demonstration of anatomical development of the human macula within the first 5 years of life using handheld OCT. Int Ophthalmol. 2019 Jul;39(7):1533–42.
Kriegel MF, Loo J, Prajna V, Farsiu S, Tuohy M, Gompa PM, et al. Reliability of physicians' measurements when manually annotating images of microbial keratitis. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2019.
Farsiu S, Loo J, Kriegel MF, Tuohy M, Prajna V, Woodward MA. Deep learning-based automatic segmentation of stromal infiltrates and associated biomarkers on slit-lamp images of microbial keratitis. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2019.
Loo J, Clemons TE, Chew EY, Friedlander M, Jaffe GJ, Farsiu S. Automatic Deep Learning OCT Analysis Algorithm Reliably Reproduces Expert-Evaluated Outcome of a Randomized Clinical Trial for Macular Telangiectasia Type 2 Treatment. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2019.
Ong SS, Proia AD, Whitson HE, Farsiu S, Doraiswamy PM, Lad EM. Ocular amyloid imaging at the crossroad of Alzheimer's disease and age-related macular degeneration: implications for diagnosis and therapy. J Neurol. 2019 Jul;266(7):1566–77.
Berntsen DA, Gostovic AT, Queener HM, Chandler MA, Huang J, Nixon AD, et al. Choroidal Thickness in Myopic Children in the BLINK Study. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2019.
Hagan K, DuBose T, Qian R, Park J, McNabb RP, Izatt JA, et al. Design and fabrication of the first handheld multimodal adaptive optics scanning laser ophthalmoscope. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2019.
Cunefare D, Huckenpahler AL, Patterson EJ, Dubra A, Carroll J, Farsiu S. Deep learning multimodal detection and classification of cone and rod photoreceptors in adaptive optics scanning light ophthalmoscope images. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2019.
Ethier CR, Li G, Lee C, Wang K, Navarro ID, Sherwood JM, et al. In vivo measurement of TM stiffness: proof-of-principle in mice. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2019.
Yeung AH-F, Subramanian D, Desai AD, Soltanian-Zadeh S, Roy A, Vajzovic L, et al. Spatio-temporal image modulation for enhancing the quality of vision with potential application in patients with retinal prostheses. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2019.
Chew EY, Clemons TE, Jaffe GJ, Johnson CA, Farsiu S, Lad EM, et al. Effect of Ciliary Neurotrophic Factor on Retinal Neurodegeneration in Patients with Macular Telangiectasia Type 2: A Randomized Clinical Trial. Ophthalmology. 2019 Apr;126(4):540–9.
Soltanian-Zadeh S, Sahingur K, Blau S, Gong Y, Farsiu S. Fast and robust active neuron segmentation in two-photon calcium imaging using spatiotemporal deep learning. Proceedings of the National Academy of Sciences of the United States of America. 2019 Apr;116(17):8554–63.
DuBose TB, LaRocca F, Farsiu S, Izatt JA. Super-resolution retinal imaging using optically reassigned scanning laser ophthalmoscopy. Nature photonics. 2019 Apr;13(4):257–62.
Toth CA, Tai V, Pistilli M, Chiu SJ, Winter KP, Daniel E, et al. Distribution of OCT Features within Areas of Macular Atrophy or Scar after 2 Years of Anti-VEGF Treatment for Neovascular AMD in CATT. Ophthalmol Retina. 2019 Apr;3(4):316–25.
Yiu G, Vuong VS, Tran S, Migacz J, Cunefare D, Farsiu S, et al. Vascular Response to Sildenafil Citrate in Aging and Age-Related Macular Degeneration. Scientific reports. 2019 Mar;9(1):5049.
Li G, Lee C, Agrahari V, Wang K, Navarro I, Sherwood JM, et al. In vivo measurement of trabecular meshwork stiffness in a corticosteroid-induced ocular hypertensive mouse model. Proc Natl Acad Sci U S A. 2019 Jan 29;116(5):1714–22.
Patel M, Mukherjee D, Farsiu S, Munoz B, Blood AB, Wilson CG, et al. Estimation of Gestational Age via Image Analysis of Anterior Lens Capsule Vascularity in Preterm Infants: A Pilot Study. Frontiers in pediatrics. 2019 Jan;7:43.
McHugh KJ, Li D, Wang JC, Kwark L, Loo J, Macha V, et al. Computational modeling of retinal hypoxia and photoreceptor degeneration in patients with age-related macular degeneration. PloS one. 2019 Jan;14(6):e0216215.
Desai AD, Peng C, Fang L, Mukherjee D, Yeung A, Jaffe SJ, et al. Open-source, machine and deep learning-based automated algorithm for gestational age estimation through smartphone lens imaging. Biomedical optics express. 2018 Dec;9(12):6038–52.
Gibson A, Piquette KE, Bergmann U, Christens-Barry W, Davis G, Endrizzi M, et al. An assessment of multimodal imaging of subsurface text in mummy cartonnage using surrogate papyrus phantoms. Heritage Science. 2018 Dec 1;6(1).
Nankivil D, Izatt JA, Farsiu S. Hand-held ao ophthalmoscopy enables cellular-level imaging. Biophotonics International. 2018 Nov 1;25(8):26–9.
Soltanian-Zadeh S, Gong Y, Farsiu S. Information-Theoretic Approach and Fundamental Limits of Resolving Two Closely Timed Neuronal Spikes in Mouse Brain Calcium Imaging. IEEE transactions on bio-medical engineering. 2018 Nov;65(11):2428–39.
DuBose T, Nankivil D, LaRocca F, Waterman G, Hagan K, Polans J, et al. Handheld Adaptive Optics Scanning Laser Ophthalmoscope. Optica. 2018 Sep 20;5(9):1027–36.
Dubose TB, Cunefare D, Cole E, Milanfar P, Izatt JA, Farsiu S. Statistical Models of Signal and Noise and Fundamental Limits of Segmentation Accuracy in Retinal Optical Coherence Tomography. IEEE transactions on medical imaging. 2018 Sep;37(9):1978–88.
Cunefare D, Langlo CS, Patterson EJ, Blau S, Dubra A, Carroll J, et al. Deep learning based detection of cone photoreceptors with multimodal adaptive optics scanning light ophthalmoscope images of achromatopsia. Biomedical optics express. 2018 Aug;9(8):3740–56.
Woertz EN, Omoba B, Chiu SJ, Farsiu S, Carroll J. Assessing ganglion cell layer topography in human albinism using optical coherence tomography. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
DuBose T, Nankivil D, LaRocca F, Hagan K, Waterman G, Du T-V, et al. Handheld Adaptive Optics Scanning Laser Ophthalmoscope for in vivo Photoreceptor Imaging of Supine Adults and Neonates. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Li G, Agrahari V, Navarro I, Farsiu S, Mitra AK, Stamer WD. Pentablock Copolymer Dexamethasone Nanoformulations Induced Ocular Hypertension in Mice. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Loo J, Fang L, Cunefare D, Jaffe GJ, Farsiu S. Deep learning-based automatic segmentation of ellipsoid zone defects in optical coherence tomography images of macular telangiectasia type 2. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
DeSouza P, Walter S, Cunefare D, Shah R, Farsiu S, Jaffe GJ. Semi-Automated Segmentation of Hyperreflective Foci on Optical Coherence Tomography. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Mukkamala L, Emami-Naeini P, Wong S, Cunefare D, Farsiu S, Morse LS, et al. Dynamic Anatomic Changes During Epiretinal Membrane Peeling Surgery Measured Using Intraoperative OCT. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Keller B, Draelos M, Tang G, Farsiu S, Kuo AN, Hauser K, et al. Real- time Corneal Segmentation and 3D Needle Tracking in Intrasurgical OCT. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Cunefare D, Patterson EJ, Blau S, Langlo CS, Dubra A, Carroll J, et al. Convolutional neural network based detection of cones in multimodal adaptive optics scanning light ophthalmoscope images of achromatopsia. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Willoughby A, Vuong V, Cunefare D, Farsiu S, Noronha G, Danis RP, et al. Choroidal Changes after Suprachoroidal Injection of CLS-TA, Triamcinolone Acetonide Injectable Suspension, in Eyes with Macular Edema Secondary to Retinal Vein Occlusion. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Chew EY, Clemons TE, Jaffe GJ, Farsiu S, Lad E, Friedlander M. Phase 2 Trial of Ciliary Neurotrophic Factor for Macular Telangiectasia Type 2. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Clemons TE, Chew EY, Lad EM, Jaffe GJ, Farsiu S, Duwel S, et al. Longitudinal Structure/Function Correlation Between Microperimetry and OCT Imaging in Type 2 Macular Telangiectasia (MacTel). In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2018.
Keller B, Draelos M, Tang G, Farsiu S, Kuo AN, Hauser K, et al. Real-time corneal segmentation and 3D needle tracking in intrasurgical OCT. Biomed Opt Express. 2018 Jun 1;9(6):2716–32.
Loo J, Fang L, Cunefare D, Jaffe GJ, Farsiu S. Deep longitudinal transfer learning-based automatic segmentation of photoreceptor ellipsoid zone defects on optical coherence tomography images of macular telangiectasia type 2. Biomed Opt Express. 2018 Jun 1;9(6):2681–98.
Willoughby AS, Vuong VS, Cunefare D, Farsiu S, Noronha G, Danis RP, et al. Reply. American journal of ophthalmology. 2018 May;189:178.
Toth CA, Tai V, Chiu SJ, Winter K, Sevilla MB, Daniel E, et al. Linking OCT, Angiographic, and Photographic Lesion Components in Neovascular Age-Related Macular Degeneration. Ophthalmol Retina. 2018 May;2(5):481–93.
Patel TP, Prajna NV, Farsiu S, Valikodath NG, Niziol LM, Dudeja L, et al. Novel Image-Based Analysis for Reduction of Clinician-Dependent Variability in Measurement of the Corneal Ulcer Size. Cornea. 2018 Mar;37(3):331–9.
Yiu G, Wang Z, Munevar C, Tieu E, Shibata B, Wong B, et al. Comparison of chorioretinal layers in rhesus macaques using spectral-domain optical coherence tomography and high-resolution histological sections. Experimental eye research. 2018 Mar;168:69–76.
Willoughby AS, Vuong VS, Cunefare D, Farsiu S, Noronha G, Danis RP, et al. Choroidal Changes After Suprachoroidal Injection of Triamcinolone Acetonide in Eyes With Macular Edema Secondary to Retinal Vein Occlusion. American journal of ophthalmology. 2018 Feb;186:144–51.
Smit-McBride Z, Nguyen J, Elliott GW, Wang Z, McBride RA, Nguyen AT, et al. Effects of aging and environmental tobacco smoke exposure on ocular and plasma circulatory microRNAs in the Rhesus macaque. Molecular vision. 2018 Jan;24:633–46.
Toth MB, Toth CA, Christens-Barry W, Farsiu S, Li Duke G, Gibson A, et al. Integrating optical imaging of mummy mask cartonnage. In: IS and T Archiving Conference, ARCHIVING 2018. 2018. p. 157–62.
Lad EM, Mukherjee D, Stinnett SS, Cousins SW, Potter GG, Burke JR, et al. Evaluation of inner retinal layers as biomarkers in mild cognitive impairment to moderate Alzheimer's disease. PLoS One. 2018;13(2):e0192646.
Sleiman K, Veerappan M, Winter KP, McCall MN, Yiu G, Farsiu S, et al. Optical Coherence Tomography Predictors of Risk for Progression to Non-Neovascular Atrophic Age-Related Macular Degeneration. In: Ophthalmology. 2017. p. 1764–77.
Wong SS, Vuong VS, Cunefare D, Farsiu S, Moshiri A, Yiu G. Macular Fluid Reduces Reproducibility of Choroidal Thickness Measurements on Enhanced Depth Optical Coherence Tomography. American journal of ophthalmology. 2017 Dec;184:108–14.
Yiu G, Tieu E, Munevar C, Wong B, Cunefare D, Farsiu S, et al. In Vivo Multimodal Imaging of Drusenoid Lesions in Rhesus Macaques. Scientific reports. 2017 Nov;7(1):15013.
Qian R, Carrasco-Zevallos OM, Mangalesh S, Sarin N, Vajzovic L, Farsiu S, et al. Characterization of Long Working Distance Optical Coherence Tomography for Imaging of Pediatric Retinal Pathology. Transl Vis Sci Technol. 2017 Oct;6(5):12.
McNabb RP, Tian J, Farsiu S, Izatt JA, Lad EM, Kuo AN. Retinal imaging in human autopsy eyes using a custom optical coherence tomography periscope. Biomed Opt Express. 2017 Sep 1;8(9):4152–9.
Cunefare D, Fang L, Cooper RF, Dubra A, Carroll J, Farsiu S. Open source software for automatic detection of cone photoreceptors in adaptive optics ophthalmoscopy using convolutional neural networks. Scientific reports. 2017 Jul;7(1):6620.
Wang J, O’Sullivan ML, Mukherjee D, Puñal VM, Farsiu S, Kay JN. Anatomy and spatial organization of Müller glia in mouse retina. J Comp Neurol. 2017 Jun 1;525(8):1759–77.
Cunefare D, Langlo CS, Dubra A, Carroll J, Farsiu S. Automatic detection of cones in multi-modal adaptive optics scanning light ophthalmoscope images of achromatopsia. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2017.
LaRocca F, Nankivil D, Waterman G, DuBose T, Polans J, Keller B, et al. Handheld Adaptive Optics Scanning Laser Ophthalmoscope for in vivo Imaging of Cone Photoreceptors. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2017.
Vuong VS, Tran S, Migacz JV, Gorczynska I, Cunefare D, Farsiu S, et al. Effect of Sildenafil Citrate on Choroidal Thickness in Age-Related Macular Degeneration. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2017.
Fang L, Wang C, Cunefare D, Guymer RH, Farsiu S. Automatic segmentation of nine layer boundaries in OCT images using convolutional neural networks and graph search. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2017.
Tai V, Chiu S, Winter K, Daniel E, Grunwald JE, Pistilli M, et al. Linking optical coherence tomographic, angiographic and photographic lesion components in neovascular age-related macular degeneration in the Comparison of Age-related Macular Degeneration Treatments Trials. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2017.
Yiu G, Munevar C, Tieu E, Wong BM, Cunefare D, Farsiu S, et al. Multimodal Imaging of Drusenoid Lesions in Rhesus Macaques. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2017.
DuBose T, LaRocca F, Farsiu S, Izatt JA. Optical photon reassignment super-resolution scanning laser ophthalmoscopy. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2017.
Toth CA, Tai V, Pistilli M, Chiu S, Winter K, Daniel E, et al. Distribution of optical coherence tomographic morphologic components within areas appearing as atrophic or scarred after two years of anti-VEGF treatment for neovascular age-related macular degeneration in the Comparison of Age-related Macular Degeneration Treatments Trials. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2017.
LaRocca F, DuBose TB, Farsiu S, Izatt JA. Optical photon reassignment super-resolved scanning laser ophthalmoscopy (Conference Presentation). In: Manns F, Söderberg PG, Ho A, editors. Ophthalmic Technologies XXVII. SPIE; 2017. p. 45–45.
Fang L, Cunefare D, Wang C, Guymer RH, Li S, Farsiu S. Automatic segmentation of nine retinal layer boundaries in OCT images of non-exudative AMD patients using deep learning and graph search. Biomedical optics express. 2017 May;8(5):2732–44.
Mukherjee D, Lad EM, Vann RR, Jaffe SJ, Clemons TE, Friedlander M, et al. Correlation Between Macular Integrity Assessment and Optical Coherence Tomography Imaging of Ellipsoid Zone in Macular Telangiectasia Type 2. Invest Ophthalmol Vis Sci. 2017 May 1;58(6):BIO291–9.
Allingham MJ, Mukherjee D, Lally EB, Rabbani H, Mettu PS, Cousins SW, et al. A Quantitative Approach to Predict Differential Effects of Anti-VEGF Treatment on Diffuse and Focal Leakage in Patients with Diabetic Macular Edema: A Pilot Study. Transl Vis Sci Technol. 2017 Mar;6(2):7.
Willoughby AS, Chiu SJ, Silverman RK, Farsiu S, Bailey C, Wiley HE, et al. Platform-Independent Cirrus and Spectralis Thickness Measurements in Eyes with Diabetic Macular Edema Using Fully Automated Software. Transl Vis Sci Technol. 2017 Feb;6(1):9.
Fang L, Li S, Cunefare D, Farsiu S. Segmentation Based Sparse Reconstruction of Optical Coherence Tomography Images. IEEE transactions on medical imaging. 2017 Feb;36(2):407–21.
Polans J, Cunefare D, Cole E, Keller B, Mettu PS, Cousins SW, et al. Enhanced visualization of peripheral retinal vasculature with wavefront sensorless adaptive optics optical coherence tomography angiography in diabetic patients. Opt Lett. 2017 Jan 1;42(1):17–20.
Prakalapakorn SG, Vickers LA, Estrada R, Freedman SF, Tomasi C, Farsiu S, et al. Using an Image Fusion Methodology to Improve Efficiency and Traceability of Posterior Pole Vessel Analysis by ROPtool. Open Ophthalmol J. 2017;11:143–51.
Polans J, Keller B, Carrasco-Zevallos OM, LaRocca F, Cole E, Whitson HE, et al. Wide-field retinal optical coherence tomography with wavefront sensorless adaptive optics for enhanced imaging of targeted regions. Biomed Opt Express. 2017 Jan 1;8(1):16–37.
Robinson MD, Chiu SJ, Toth CA, Izatt JA, Lo JY, Farsiu S. New applications of super-resolution in medical imaging. In: Super-Resolution Imaging. 2017. p. 383–412.
Veerappan M, El-Hage-Sleiman A-KM, Tai V, Chiu SJ, Winter KP, Stinnett SS, et al. Optical Coherence Tomography Reflective Drusen Substructures Predict Progression to Geographic Atrophy in Age-related Macular Degeneration. Ophthalmology. 2016 Dec;123(12):2554–70.
Lezama J, Mukherjee D, McNabb RP, Sapiro G, Kuo AN, Farsiu S. Segmentation guided registration of wide field-of-view retinal optical coherence tomography volumes. Biomed Opt Express. 2016 Dec 1;7(12):4827–46.
Smith RT, Farsiu S, Allingham M. Understanding RPE Lipofuscin. Invest Ophthalmol Vis Sci. 2016 Dec 1;57(15):6766.
Veerappan M, El-Hage-Sleiman A-KM, Tai V, Chiu SJ, Winter KP, Stinnett SS, et al. Optical Coherence Tomography Reflective Drusen Substructures Predict Progression to Geographic Atrophy in Age-related Macular Degeneration. Ophthalmology. 2016 Dec;123(12):2554–70.
Pasricha ND, Shieh C, Carrasco-Zevallos OM, Keller B, Cunefare D, Mehta JS, et al. Needle Depth and Big-Bubble Success in Deep Anterior Lamellar Keratoplasty: An Ex Vivo Microscope-Integrated OCT Study. Cornea. 2016 Nov;35(11):1471–7.
Twa MD, Schulle KL, Chiu SJ, Farsiu S, Berntsen DA. Validation of Macular Choroidal Thickness Measurements from Automated SD-OCT Image Segmentation. Optometry and vision science : official publication of the American Academy of Optometry. 2016 Nov;93(11):1387–98.
Yiu G, Vuong VS, Oltjen S, Cunefare D, Farsiu S, Garzel L, et al. Effect of Uveal Melanocytes on Choroidal Morphology in Rhesus Macaques and Humans on Enhanced-Depth Imaging Optical Coherence Tomography. Investigative ophthalmology & visual science. 2016 Oct;57(13):5764–71.
Li G, Mukherjee D, Navarro I, Ashpole NE, Sherwood JM, Chang J, et al. Visualization of conventional outflow tissue responses to netarsudil in living mouse eyes. Eur J Pharmacol. 2016 Sep 15;787:20–31.
Vuong V, Moisselev E, Cunefare D, Farsiu S, Moshiri A, Yiu G. Repeatability of choroidal thickness measurements on Enhanced Depth Imaging OCT using different posterior boundaries. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
LaRocca F, Nankivil D, Dubose T, Toth CA, Farsiu S, Izatt JA. Parafoveal cone photoreceptor imaging in infants and young children using an ultra-compact SLO/OCT handheld probe. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Lad EM, Mukherjee D, Vann RR, Clemons TE, Chew EY, Jaffe GJ, et al. Novel software to assess correlation between MAIA microperimetry and OCT imaging of ellipsoid zone in type 2 idiopathic macular telangiectasia. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Li G, Mukherjee D, Navarro I, Farsiu S, Gonzalez P, Kopczynski C, et al. Real-time Visualization of AR-13324 Effects on Schlemm's Canal and Scleral Vessels in Living Mice. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Allingham MJ, Mukherjee D, Lally E, Rabbani H, Mettu PS, Cousins SW, et al. A quantitative approach to predict differential effects of anti-VEGF treatment on diffuse and focal leakage in patients with diabetic macular edema. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Cunefare D, Cooper RF, Higgins BP, Dubra A, Carroll J, Farsiu S. Automated Detection of Cone Photoreceptors in Split Detector Adaptive Optics Scanning Light Ophthalmoscope Images. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Davila J, Bavinger C, Dunbar GE, Stem M, Kwark L, Farsiu S, et al. Effects of panretinal photocoagulation on macular structure and function in patients with proliferative diabetic retinopathy. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Whitson H, Farsiu S, Stinnett SS, Kwark L, Potter G, Burke J, et al. Retinal Biomarkers of Alzheimer's Disease. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Mukherjee D, Li G, Stamer WD, Farsiu S. Segmentation and analysis software for mapping aqueous humor outflow pattern in living mice. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Walter S, Grewal DS, Cunefare D, Bhullar PK, Farsiu S, Mahmoud TH. Topography of the Vitreoretinal Interface in Vitreomacular Traction Syndrome. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Polans J, LaRocca F, Carrasco-Zevallos O, Keller B, Lad EM, Whitson H, et al. Wide-Field Sensorless Adaptive Optics Optical Coherence Tomography for Enhanced Visualization of the Retinal Periphery. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Vuong VS, Moisseiev E, Cunefare D, Farsiu S, Moshiri A, Yiu G. Repeatability of Choroidal Thickness Measurements on Enhanced Depth Imaging Optical Coherence Tomography Using Different Posterior Boundaries. American journal of ophthalmology. 2016 Sep;169:104–12.
Ashpole NE, Mukherjee D, Li G, Maccarini P, Sherwood JM, Ethier CR, et al. IOP-induced Changes in Schlemm's Canal Dimensions and the Relation to Shear Stress. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
DuBose TB, Milanfar P, Izatt JA, Farsiu S. Fundamental Bounds on Accuracy of Human Retinal SDOCT Image Segmentation based on Retinal Layer-Specific Noise Models. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2016.
Carrasco-Zevallos OM, Keller B, Viehland C, Shen L, Waterman G, Todorich B, et al. Live volumetric (4D) visualization and guidance of in vivo human ophthalmic surgery with intraoperative optical coherence tomography. Sci Rep. 2016 Aug 19;6:31689.
Todorich B, Shieh C, DeSouza PJ, Carrasco-Zevallos OM, Cunefare DL, Stinnett SS, et al. Impact of Microscope-Integrated OCT on Ophthalmology Resident Performance of Anterior Segment Surgical Maneuvers in Model Eyes. Invest Ophthalmol Vis Sci. 2016 Jul 1;57(9):OCT146–53.
Kuo AN, Verkicharla PK, McNabb RP, Cheung CY, Hilal S, Farsiu S, et al. Posterior Eye Shape Measurement With Retinal OCT Compared to MRI. Invest Ophthalmol Vis Sci. 2016 Jul 1;57(9):OCT196–203.
Simonett JM, Huang R, Siddique N, Farsiu S, Siddique T, Volpe NJ, et al. Macular sub-layer thinning and association with pulmonary function tests in Amyotrophic Lateral Sclerosis. Scientific reports. 2016 Jul;6:29187.
Keller B, Cunefare D, Grewal DS, Mahmoud TH, Izatt JA, Farsiu S. Length-adaptive graph search for automatic segmentation of pathological features in optical coherence tomography images. J Biomed Opt. 2016 Jul 1;21(7):76015.
Wu Z, Cunefare D, Chiu E, Luu CD, Ayton LN, Toth CA, et al. Longitudinal Associations Between Microstructural Changes and Microperimetry in the Early Stages of Age-Related Macular Degeneration. Invest Ophthalmol Vis Sci. 2016 Jul 1;57(8):3714–22.
Stem MS, Dunbar GE, Jackson GR, Farsiu S, Pop-Busui R, Gardner TW. Glucose variability and inner retinal sensory neuropathy in persons with type 1 diabetes mellitus. Eye (London, England). 2016 Jun;30(6):825–32.
Sevilla MB, McGwin G, Lad EM, Clark M, Yuan EL, Farsiu S, et al. Relating Retinal Morphology and Function in Aging and Early to Intermediate Age-related Macular Degeneration Subjects. Am J Ophthalmol. 2016 May;165:65–77.
Cunefare D, Cooper RF, Higgins B, Katz DF, Dubra A, Carroll J, et al. Automatic detection of cone photoreceptors in split detector adaptive optics scanning light ophthalmoscope images. Biomedical optics express. 2016 May;7(5):2036–50.
DuBose TB, Milanfar P, Izatt JA, Farsiu S. Optical coherence tomography noise modeling and fundamental bounds on human retinal layer segmentation accuracy (Conference Presentation). In: Izatt JA, Fujimoto JG, Tuchin VV, editors. Optical Coherence Tomography and Coherence Domain Optical Methods in Biomedicine XX. SPIE; 2016. p. 65–65.
Viehland C, Keller B, Carrasco-Zevallos O, Cunefare D, Shen L, Toth C, et al. Novel real-time volumetric tool segmentation algorithm for intraoperative microscope integrated OCT (Conference Presentation). In: Izatt JA, Fujimoto JG, Tuchin VV, editors. Optical Coherence Tomography and Coherence Domain Optical Methods in Biomedicine XX. SPIE; 2016. p. 1–1.
Hu F, Morhard R, Liu H, Murphy H, Farsiu S, Ramanujam N. Label-free vascular imaging in a spontaneous hamster cheek pouch carcinogen model for pre-cancer detection (Conference Presentation). In: Alfano RR, Demos SG, editors. Optical Biopsy XIV: Toward Real-Time Spectroscopic Imaging and Diagnosis. SPIE; 2016. p. 42–42.
Allingham MJ, Nie Q, Lad EM, Izatt DJ, Mettu PS, Cousins SW, et al. Semiautomatic Segmentation of Rim Area Focal Hyperautofluorescence Predicts Progression of Geographic Atrophy Due to Dry Age-Related Macular Degeneration. Invest Ophthalmol Vis Sci. 2016 Apr 1;57(4):2283–9.
Kim S, Heflin S, Kresty LA, Halling M, Perez LN, Ho D, et al. Analyzing spatial correlations in tissue using angle-resolved low coherence interferometry measurements guided by co-located optical coherence tomography. Biomed Opt Express. 2016 Apr 1;7(4):1400–14.
Knoll B, Simonett J, Volpe NJ, Farsiu S, Ward M, Rademaker A, et al. Retinal nerve fiber layer thickness in amnestic mild cognitive impairment: Case-control study and meta-analysis. Alzheimer’s & dementia (Amsterdam, Netherlands). 2016 Jan;4:85–93.
Folgar FA, Yuan EL, Sevilla MB, Chiu SJ, Farsiu S, Chew EY, et al. Drusen Volume and Retinal Pigment Epithelium Abnormal Thinning Volume Predict 2-Year Progression of Age-Related Macular Degeneration. Ophthalmology. 2016 Jan;123(1):39-50.e1.
Bavinger JC, Dunbar GE, Stem MS, Blachley TS, Kwark L, Farsiu S, et al. The Effects of Diabetic Retinopathy and Pan-Retinal Photocoagulation on Photoreceptor Cell Function as Assessed by Dark Adaptometry. Investigative ophthalmology & visual science. 2016 Jan;57(1):208–17.
LaRocca F, Nankivil D, DuBose T, Toth CA, Farsiu S, Izatt JA. In vivo cellular-resolution retinal imaging in infants and children using an ultracompact handheld probe. Nat Photonics. 2016;10:580–4.
McNabb RP, Farsiu S, Stinnett SS, Izatt JA, Kuo AN. Reply. Vol. 123, Ophthalmology. 2016. p. e6–7.
Boussommier-Calleja A, Li G, Wilson A, Ziskind T, Scinteie OE, Ashpole NE, et al. Physical Factors Affecting Outflow Facility Measurements in Mice. Invest Ophthalmol Vis Sci. 2015 Dec;56(13):8331–9.
Estrada R, Allingham MJ, Mettu PS, Cousins SW, Tomasi C, Farsiu S. Retinal Artery-Vein Classification via Topology Estimation. IEEE Trans Med Imaging. 2015 Dec;34(12):2518–34.
Nam DH, Desouza PJ, Hahn P, Tai V, Sevilla MB, Tran-Viet D, et al. INTRAOPERATIVE SPECTRAL DOMAIN OPTICAL COHERENCE TOMOGRAPHY IMAGING AFTER INTERNAL LIMITING MEMBRANE PEELING IN IDIOPATHIC EPIRETINAL MEMBRANE WITH CONNECTING STRANDS. Retina. 2015 Aug;35(8):1622–30.
Estrada R, Tomasi C, Schmidler SC, Farsiu S. Tree topology estimation. IEEE Transactions on Pattern Analysis and Machine Intelligence. 2015 Aug 1;37(8):1688–701.
Hahn P, Carrasco-Zevallos O, Cunefare D, Migacz J, Farsiu S, Izatt JA, et al. Intrasurgical Human Retinal Imaging With Manual Instrument Tracking Using a Microscope-Integrated Spectral-Domain Optical Coherence Tomography Device. Transl Vis Sci Technol. 2015 Jul;4(4):1.
Yiu G, Chiu SJ, Petrou PA, Stinnett S, Sarin N, Farsiu S, et al. Relationship of Central Choroidal Thickness with Age-Related Macular Degeneration Status. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Sevilla MB, McGwin G, Lad E, Clark ME, Yuan E, Farsiu S, et al. Relating retinal morphology on spectral domain optical coherence tomography (SDOCT) to macular function in aging and early to intermediate age-related macular degeneration (AMD). In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Gunther RC, Toth CA, Veerappan M, Michelson M, Tai V, Winter K, et al. Association of drusen substructure findings on SD-OCT with abnormal drusen volumes and progression to choroidal neovascularization in the AREDS2 Ancillary Study. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Bozho-Todorich, Shieh C, DeSouza P, Carrasco-Zevallos O, Cunefare D, Izatt JA, et al. Impact of Microscope Integrated OCT on ophthalmology resident performance of anterior segment maneuvers in model eyes. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Whitson HE, Farsiu S, Stinnett S, Lee S, Kwark L, Potter G, et al. Retinal imaging biomarkers for early diagnosis of Alzheimer's disease. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Allingham MJ, Izatt D, Nie Q, Lad EM, Mettu PS, Cousins SW, et al. Robust, easy-to-use, semiautomated software quantifies lesion rim area hyperautofluorescence and predicts progression of geographic atrophy. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Simonett J, Huang R, Siddique N, Farsiu S, Siddique T, Volpe NJ, et al. Retinal Structural Changes in Amyotrophic Lateral Sclerosis (ALS). In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Goldhagen BE, Bhatti MT, Srinivasan PP, Chiu SJ, Farsiu S, El-Dairi MA. Retinal atrophy in eyes with resolved papilledema detected by optical coherence tomography. J Neuroophthalmol. 2015 Jun;35(2):122–6.
Rothman A, Sevilla MB, El-Dairi M, Shimony J, Gustafson K, Pizoli C, et al. Very Preterm Neonatal Retinal Nerve Fiber Layer Thickness is a Biomarker of Brain Anatomy and Neurodevelopmental Health. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Tai V, Sevilla MB, Clemons TE, Chew EY, Ferris FL, Farsiu S, et al. Comparing retinal sensitivity and SDOCT volumes in the AMD Phenotype and Genotype study. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Lad EM, Cousins SW, Farsiu S, Proia AD. Retinal Macrophages in Stages of Age-related Macular Degeneration. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Chandramohan A, Wright JP, Fernandez XD, Zhuang J, Kwark L, Farsiu S, et al. Relationships between Retinal Nerve Fiber Layer and Brain Changes in Age-Related Macular Degeneration. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2015.
Folgar FA, Yuan EL, Farsiu S, Toth CA. Erratum: Lateral and axial measurement differences between spectral-domain optical coherence tomography systems(Journal of Biomedical Optics 19:1 016014 (2014)). Vol. 20, Journal of Biomedical Optics. 2015.
Folgar FA, Yuan EL, Farsiu S, Toth CA. Errata: Lateral and axial measurement differences between spectral-domain optical coherence tomography systems. Vol. 20, J Biomed Opt. 2015. p. 59802.
Yiu G, Chiu SJ, Petrou PA, Stinnett S, Sarin N, Farsiu S, et al. Relationship of central choroidal thickness with age-related macular degeneration status. Am J Ophthalmol. 2015 Apr;159(4):617–26.
Rothman AL, Sevilla MB, Freedman SF, Tong AY, Tai V, Tran-Viet D, et al. Assessment of retinal nerve fiber layer thickness in healthy, full-term neonates. Am J Ophthalmol. 2015 Apr;159(4):803–11.
Chiu SJ, Allingham MJ, Mettu PS, Cousins SW, Izatt JA, Farsiu S. Kernel regression based segmentation of optical coherence tomography images with diabetic macular edema. Biomed Opt Express. 2015 Apr 1;6(4):1172–94.
LaRocca F, Nankivil D, DuBose T, Farsiu S, Izatt JA. Ultra-compact switchable SLO/OCT handheld probe design. In: Manns F, Söderberg PG, Ho A, editors. SPIE Proceedings. SPIE; 2015. p. 93071F-93071F.
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 Jan 29;56(3):1482–92.
Farsiu S, Fang L, Li S, Kang X, Izatt JA. 3-D Adaptive Sparsity Based Image Compression with Applications to Optical Coherence Tomography. IEEE Transactions on Medical Imaging, (IN PRESS). 2015;
LaRocca F, Nankivil D, Farsiu S, Izatt JA. True color scanning laser ophthalmoscopy and optical coherence tomography handheld probe. Biomedical optics express. 2014 Sep;5(9):3204–16.
Nankivil D, Dhalla A-H, Gahm N, Shia K, Farsiu S, Izatt JA. Coherence revival multiplexed, buffered swept source optical coherence tomography: 400 kHz imaging with a 100 kHz source. Optics letters. 2014 Jul;39(13):3740–3.
Folgar FA, Sevilla MB, Tai V, Clemons TE, Danis RP, Chew EY, et al. Comparison of standardized color photography grading and SDOCT volume analysis to predict 2-year progression from intermediate to advanced age-related macular degeneration. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2014.
Polans J, McNabb RP, Izatt JA, Farsiu S. Compressed Wavefront Aberrometry of the Human Eye. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2014.
LaRocca F, Nankivil D, Farsiu S, Izatt JA. Handheld Simultaneous True Color SLO-OCT System. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2014.
McHugh K, Kwark L, Farsiu S, Kim LA, Saint-Geniez M. Patient-specific modeling of retinal oxygen as a predictor of AMD progression. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2014.
Tai V, Folgar FA, Sevilla MB, Clemons TE, Danis RP, Chew EY, et al. Comparison of standardized color photography grading and SDOCT volume analysis for quantitative assessment of drusen and geographic atrophy in intermediate age-related macular degeneration. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2014.
Sevilla MB, Folgar FA, Tai V, Clemons TE, Danis RP, Chew EY, et al. Comparison of standardized color photography grading and SDOCT volume analysis in intermediate age-related macular degeneration to predict 2-year visual acuity outcomes. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2014.
Li G, Gonzalez P, Farsiu S, Stamer WD. Dynamic alterations in conventional outflow function in Bmp2-induced ocular hypertensive mice. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2014.
Li G, Farsiu S, Chiu SJ, Gonzalez P, Lütjen-Drecoll E, Overby DR, et al. Pilocarpine-induced dilation of Schlemm's canal and prevention of lumen collapse at elevated intraocular pressures in living mice visualized by OCT. Invest Ophthalmol Vis Sci. 2014 Mar 4;55(6):3737–46.
Polans J, McNabb RP, Izatt JA, Farsiu S. Compressed wavefront sensing. Opt Lett. 2014 Mar 1;39(5):1189–92.
Srinivasan PP, Heflin SJ, Izatt JA, Arshavsky VY, Farsiu S. Automatic segmentation of up to ten layer boundaries in SD-OCT images of the mouse retina with and without missing layers due to pathology. Biomed Opt Express. 2014 Feb 1;5(2):348–65.
Yiu G, Pecen P, Sarin N, Chiu SJ, Farsiu S, Mruthyunjaya P, et al. Characterization of the choroid-scleral junction and suprachoroidal layer in healthy individuals on enhanced-depth imaging optical coherence tomography. JAMA Ophthalmol. 2014 Feb;132(2):174–81.
Li G, Farsiu S, Qiu J, Dixon A, Song C, McKinnon SJ, et al. Disease progression in iridocorneal angle tissues of BMP2-induced ocular hypertensive mice with optical coherence tomography. Mol Vis. 2014;20:1695–709.
Folgar FA, Yuan EL, Farsiu S, Toth CA. Lateral and axial measurement differences between spectral-domain optical coherence tomography systems. J Biomed Opt. 2014 Jan;19(1):16014.
Bowes Rickman C, Farsiu S, Toth CA, Klingeborn M. Dry age-related macular degeneration: mechanisms, therapeutic targets, and imaging. Invest Ophthalmol Vis Sci. 2013 Dec 13;54(14):ORSF68–80.
Lee JY, Chiu SJ, Srinivasan PP, Izatt JA, Toth CA, Farsiu S, et al. Fully automatic software for retinal thickness in eyes with diabetic macular edema from images acquired by cirrus and spectralis systems. Invest Ophthalmol Vis Sci. 2013 Nov 15;54(12):7595–602.
Fang L, Li S, McNabb RP, Nie Q, Kuo AN, Toth CA, et al. Fast acquisition and reconstruction of optical coherence tomography images via sparse representation. IEEE Trans Med Imaging. 2013 Nov;32(11):2034–49.
LaRocca F, Dhalla A-H, Kelly MP, Farsiu S, Izatt JA. Optimization of confocal scanning laser ophthalmoscope design. Journal of biomedical optics. 2013 Jul;18(7):076015.
Moreno TA, O’Connell RV, Chiu SJ, Farsiu S, Cabrera MT, Maldonado RS, et al. Choroid development and feasibility of choroidal imaging in the preterm and term infants utilizing SD-OCT. Invest Ophthalmol Vis Sci. 2013 Jun 14;54(6):4140–7.
Arshavsky A, LaRocca F, Izatt J, Kuo A, Farsiu S. Automatic Segmentation of Corneal Lamellar Graft Surfaces from Low-Contrast Optical Coherence Tomography Images. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
LaRocca F, Nankivil D, Dhalla A-H, McNabb R, Toth C, Farsiu S, et al. Handheld Combined SLO/OCT System. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Chiu SJ, Lokhnygina Y, Dubis AM, Dubra A, Carroll J, Izatt JA, et al. Automatic cone photoreceptor segmentation using graph theory and dynamic programming. Biomed Opt Express. 2013 Jun 1;4(6):924–37.
Hendargo HC, Estrada R, Chiu SJ, Tomasi C, Farsiu S, Izatt JA. Automated non-rigid registration and mosaicing for robust imaging of distinct retinal capillary beds using speckle variance optical coherence tomography. Biomedical optics express. 2013 Jun;4(6):803–21.
Hendargo H, Estrada R, Chiu S, Tomasi C, Farsiu S, Izatt J. Image Registration for Motion Artifact Removal in Retinal Vascular Imaging Using Speckle Variance Fourier Domain Optical Coherence Tomography. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Yuan E, Folgar F, Chiu S, Farsiu S, Toth C. One-year macular volume change of the neurosensory retina in intermediate AMD by SDOCT semi-automated segmentation. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Chiu S, Dubis A, Dubra A, Carroll J, Izatt J, Farsiu S. Automatic Segmentation of Photoreceptors in AOSLO Images Using Graph Theory and Dynamic Programming. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Yiu G, Fekrat S, Sarin N, Chiu S, Stinnett S, Farsiu S, et al. Choroidal Thickne in Age-Related Macular Degeneration as measured by Semi-Automated Segmentation of the Choroid in Enhanced-Depth Imaging Optical Coherence Tomography. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Manjunath V, Yiu G, Chiu S, Stinnett S, Farsiu S, Mahmoud T. Effect of Focal Laser and anti-VEGF Therapy on Choroidal Thickness in Diabetic Macular Edema as measured by Enhanced-Depth Imaging Optical Coherence Tomography. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Stem M, Hussain M, Chan M, Chiu S, Srinivasan P, Sundstrom J, et al. Structural changes in the retina and cornea during diabetic neuropathy. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
McNabb R, Farsiu S, Stinnett S, Izatt J, Kuo A. Measured Corneal Power and Astigmatism After LASIK with Spectral Domain Optical Coherence Tomography (SDOCT) Reflects Change in Manifest Refraction. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Vajzovic L, Dubis A, O’Connell R, Moreno T, Chiu S, Freedman S, et al. Retinal Photoreceptor Development and Maturation in Preterm and Term Infants. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Dubis A, Folgar F, Yuan E, Farsiu S, Toth C. Comparison of retinal measurements by spectral-domain optical coherence tomography systems using a model eye. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2013.
Cabrera MT, O’Connell RV, Toth CA, Maldonado RS, Tran-Viet D, Allingham MJ, et al. Macular findings in healthy full-term Hispanic newborns observed by hand-held spectral-domain optical coherence tomography. Ophthalmic Surg Lasers Imaging Retina. 2013;44(5):448–54.
Larocca F, Nankivil D, Farsiu S, Izatt JA. Handheld simultaneous scanning laser ophthalmoscopy and optical coherence tomography system. Biomedical optics express. 2013 Jan;4(11):2307–21.
McNabb RP, LaRocca F, Farsiu S, Kuo AN, Izatt JA. Distributed scan SDOCT improves post refractive surgery corneal biometry. Biomedical Optics, BIOMED 2012. 2012 Dec 1;
McNabb RP, LaRocca F, Farsiu S, Kuo AN, Izatt JA. Distributed scan SDOCT improves post refractive surgery corneal biometry. In: Digital Holography and Three-Dimensional Imaging, DH 2012. 2012.
McNabb RP, Larocca F, Farsiu S, Kuo AN, Izatt JA. Distributed scanning volumetric SDOCT for motion corrected corneal biometry. Biomed Opt Express. 2012 Sep 1;3(9):2050–65.
Folgar FA, Chow JH, Farsiu S, Wong WT, Schuman SG, O’Connell RV, et al. Spatial correlation between hyperpigmentary changes on color fundus photography and hyperreflective foci on SDOCT in intermediate AMD. Invest Ophthalmol Vis Sci. 2012 Jul 9;53(8):4626–33.
Yanni SE, Wang J, Chan M, Carroll J, Farsiu S, Leffler JN, et al. Foveal avascular zone and foveal pit formation after preterm birth. The British journal of ophthalmology. 2012 Jul;96(7):961–6.
Kuo AN, McNabb RP, Zhao M, Larocca F, Stinnett SS, Farsiu S, et al. Corneal biometry from volumetric SDOCT and comparison with existing clinical modalities. Biomed Opt Express. 2012 Jun 1;3(6):1279–90.
Fang L, Li S, Nie Q, Izatt JA, Toth CA, Farsiu S. Sparsity based denoising of spectral domain optical coherence tomography images. Biomed Opt Express. 2012 May 1;3(5):927–42.
Chiu SJ, Toth CA, Bowes Rickman C, Izatt JA, Farsiu S. Automatic segmentation of closed-contour features in ophthalmic images using graph theory and dynamic programming. Biomed Opt Express. 2012 May 1;3(5):1127–40.
Lin P, Mettu PS, Pomerleau DL, Chiu SJ, Maldonado R, Stinnett S, et al. Image inversion spectral-domain optical coherence tomography optimizes choroidal thickness and detail through improved contrast. Invest Ophthalmol Vis Sci. 2012 Apr 6;53(4):1874–82.
Estrada R, Tomasi C, Cabrera MT, Wallace DK, Freedman SF, Farsiu S. Exploratory Dijkstra forest based automatic vessel segmentation: applications in video indirect ophthalmoscopy (VIO). Biomed Opt Express. 2012 Feb 1;3(2):327–39.
Chiu SJ, Izatt JA, O’Connell RV, Winter KP, Toth CA, Farsiu S. Validated automatic segmentation of AMD pathology including drusen and geographic atrophy in SD-OCT images. Invest Ophthalmol Vis Sci. 2012 Jan 5;53(1):53–61.
Cabrera MT, Maldonado RS, Toth CA, O’Connell RV, Chen BB, Chiu SJ, et al. Subfoveal fluid in healthy full-term newborns observed by handheld spectral-domain optical coherence tomography. Am J Ophthalmol. 2012 Jan;153(1):167-75.e3.
Maldonado RS, O’Connell RV, Sarin N, Freedman SF, Wallace DK, Cotten CM, et al. Dynamics of human foveal development after premature birth. Ophthalmology. 2011 Dec;118(12):2315–25.
Ehlers JP, Kernstine K, Farsiu S, Sarin N, Maldonado R, Toth CA. Analysis of pars plana vitrectomy for optic pit-related maculopathy with intraoperative optical coherence tomography: a possible connection with the vitreous cavity. Arch Ophthalmol. 2011 Nov;129(11):1483–6.
Estrada R, Tomasi C, Cabrera MT, Wallace DK, Freedman SF, Farsiu S. Enhanced video indirect ophthalmoscopy (VIO) via robust mosaicing. Biomed Opt Express. 2011 Oct 1;2(10):2871–87.
Ding J-D, Johnson LV, Herrmann R, Farsiu S, Smith SG, Groelle M, et al. Anti-amyloid therapy protects against retinal pigmented epithelium damage and vision loss in a model of age-related macular degeneration. Proc Natl Acad Sci U S A. 2011 Jul 12;108(28):E279–87.
Larocca F, Chiu SJ, McNabb RP, Kuo AN, Izatt JA, Farsiu S. Robust automatic segmentation of corneal layer boundaries in SDOCT images using graph theory and dynamic programming. Biomed Opt Express. 2011 Jun 1;2(6):1524–38.
Ding J, Herrmann LJR, Farsiu S, Smith S, Groelle M, Mace B, et al. Anti-amyloid immunotherapy protects against RPE damage and loss of visual function in a mouse model of age-related macular degeneration. Proceedings of the National Academy of Sciences (PNAS). 2011 Jun;108(28).
Dayani PN, Maldonado R, Farsiu S, Toth CA. Erratum: Intraoperative use of handheld spectral domain optical coherence tomography imaging in macular surgery (Retina (2009) 29:10 (1457-1468)). Vol. 31, Retina. 2011. p. 1236.
Ehlers JP, Tao YK, Farsiu S, Maldonado R, Izatt JA, Toth CA. Integration of a spectral domain optical coherence tomography system into a surgical microscope for intraoperative imaging. Invest Ophthalmol Vis Sci. 2011 May 16;52(6):3153–9.
Reidel B, Thompson JW, Farsiu S, Moseley MA, Skiba NP, Arshavsky VY. Proteomic profiling of a layered tissue reveals unique glycolytic specializations of photoreceptor cells. Mol Cell Proteomics. 2011 Mar;10(3):M110.002469.
Li XT, Chiu SJ, Nicholas P, Toth CA, Izatt JA, Farsiu S. Segmentation of ophthalmic Optical Coherence Tomography images using graph cuts. In 2010.
Ehlers JP, Gupta PK, Farsiu S, Maldonado R, Kim T, Toth CA, et al. Evaluation of contrast agents for enhanced visualization in optical coherence tomography. Invest Ophthalmol Vis Sci. 2010 Dec;51(12):6614–9.
Robinson MD, Toth CA, Lo JY, Farsiu S. Efﬁcient fourier-wavelet super-resolution. IEEE Trans Image Process. 2010 Oct;19(10):2669–81.
Jain N, Farsiu S, Khanifar AA, Bearelly S, Smith RT, Izatt JA, et al. Quantitative comparison of drusen segmented on SD-OCT versus drusen delineated on color fundus photographs. Invest Ophthalmol Vis Sci. 2010 Oct;51(10):4875–83.
Chiu SJ, Li XT, Nicholas P, Toth CA, Izatt JA, Farsiu S. Automatic segmentation of seven retinal layers in SDOCT images congruent with expert manual segmentation. Opt Express. 2010 Aug 30;18(18):19413–28.
Tao YK, Farsiu S, Izatt JA. Interlaced spectrally encoded confocal scanning laser ophthalmoscopy and spectral domain optical coherence tomography. Biomedical optics express. 2010 Aug;1(2):431–40.
Kuo AN, Zhao M, Farsiu S, Izatt JA. SDOCT Measurement of Corneal Power and Comparision With Standard Techniques. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2010.
Bearelly S, Raghunath S, Khanifar AA, Cousins SW, Farsiu S. Quantitative Evaluation of Fundus Autofluorescence Images to Predict Geographic Atrophy Progression. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2010.
Maldonado RS, Vosburg R, Sarin N, Wallace DK, Freedman SF, Farsiu S, et al. Foveal Morphological Characteristics in Preterm Neonates Without Severe Retinopathy of Prematurity (ROP) Observed With Spectral Domain Optical Coherence Tomography (SD OCT). In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2010.
Estrada R, Tomasi C, Wallace DK, Freedman SF, Farsiu S. Software-Based Method for Acquiring Enhanced, Panoramic Images From Video Indirect Ophthalmoscopy for Evaluation of Retinopathy of Prematurity (ROP). In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2010.
Chiu SJ, Li X, Nicholas P, Toth CA, Izatt JA, Farsiu S. Automated Segmentation of Seven Retinal Layers in SDOCT Congruent With Expert Manual Segmentation. In: INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE. ASSOC RESEARCH VISION OPHTHALMOLOGY INC; 2010.
Chavala SH, Farsiu S, Maldonado R, Wallace DK, Freedman SF, Toth CA. Insights into advanced retinopathy of prematurity using handheld spectral domain optical coherence tomography imaging. Ophthalmology. 2009 Dec;116(12):2448–56.
Chou N, Izatt JA, Farsiu S. Generalized pseudo-polar fourier grids and applications in registering ophthalmic optical coherence tomography images. Conference Record - Asilomar Conference on Signals, Systems and Computers. 2009 Dec 1;807–11.
Toth CA, Farsiu S, Khanifar A, Chong G. Applications of spectral-domain OCT in AMD. In: Optical Coherence Tomography in Age-Related Macular Degeneration: OCT in AMD. 2009. p. 15–34.
Wang X, Farsiu S, Milanfar P, Shakouri A. Power trace: An efficient method for extracting the power dissipation profile in an IC chip from its temperature map. IEEE Transactions on Components and Packaging Technologies. 2009 Aug 14;32(2):309–16.
Scott AW, Farsiu S, Enyedi LB, Wallace DK, Toth CA. Reply. Vol. 147, American Journal of Ophthalmology. 2009. p. 1102–3.
Schuman SG, Koreishi AF, Farsiu S, Jung S-H, Izatt JA, Toth CA. Photoreceptor layer thinning over drusen in eyes with age-related macular degeneration imaged in vivo with spectral-domain optical coherence tomography. Ophthalmology. 2009 Mar;116(3):488-496.e2.
Scott AW, Farsiu S, Enyedi LB, Wallace DK, Toth CA. Imaging the infant retina with a hand-held spectral-domain optical coherence tomography device. Am J Ophthalmol. 2009 Feb;147(2):364-373.e2.
Dayani PN, Maldonado R, Farsiu S, Toth CA. Intraoperative use of handheld spectral domain optical coherence tomography imaging in macular surgery. Retina. 2009;29(10):1457–68.
Chong GT, Farsiu S, Freedman SF, Sarin N, Koreishi AF, Izatt JA, et al. Abnormal foveal morphology in ocular albinism imaged with spectral-domain optical coherence tomography. Arch Ophthalmol. 2009 Jan;127(1):37–44.
Robinson D, Farsiu S, Milanfar P. Optimal registration of aliased images using variable projection with applications to super-resolution. Computer Journal. 2009 Jan 1;52(1):31–42.
Robinson MD, Farsiu S, Lo JY, Toth CA. Efficient restoration and enhancement of super-resolved X-ray images. In 2008. p. 629–32.
Farsiu S, Chiu SJ, Izatt JA, Toth CA. Fast detection and segmentation of drusen in retinal optical coherence tomography images. In 2008.
Khanifar AA, Farsiu S. Spectral-domain OCT in practice. Retina Today. 2008. p. 49–51.
Takeda H, Farsiu S, Milanfar P. Deblurring using regularized locally adaptive kernel regression. IEEE transactions on image processing : a publication of the IEEE Signal Processing Society. 2008 Apr;17(4):550–63.
Robinson MD, Farsiu S, Lo JY, Toth CA. Efficient Restoration and Enhancement of Super-resolved X-ray Images. In: 2008 IEEE INTERNATIONAL CONFERENCE ON IMAGE PROCESSING, PROCEEDINGS. IEEE; 2008. p. 633-+.
Farsiu S, Robinson D, Elad M, Milanfar P. Simultaneous demosaicking and resolution enhancement from under-sampled image sequences. In: Single-Sensor Imaging: Methods and Applications for Digital Cameras. 2008. p. 503–33.
Robinson MD, Farsiu S, Lo JY, Milanfar P, Toth CA. Efficient registration of aliased x-ray images. Conference Record - Asilomar Conference on Signals, Systems and Computers. 2007. p. 215–9.
Takeda H, Farsiu S, Milanfar P. Higher order bilateral filters and their properties. Proceedings of SPIE - The International Society for Optical Engineering. 2007 Aug 31;6498.
Wang X, Shakouri A, Farsiu S, Milanfar P. Extraction of power dissipation profile in an IC chip from temperature map. Annual IEEE Semiconductor Thermal Measurement and Management Symposium. 2007 Aug 27;51–6.
Farsiu S, Christofferson J, Eriksson B, Milanfar P, Friedlander B, Shakouri A, et al. Statistical detection and imaging of objects hidden in turbid media using ballistic photons. Appl Opt. 2007 Aug 10;46(23):5805–22.
Takeda H, Farsiu S, Milanfar P. Kernel regression for image processing and reconstruction. IEEE transactions on image processing : a publication of the IEEE Signal Processing Society. 2007 Feb;16(2):349–66.
Farsiu S, Milanfar P. Multi-scale statistical detection and ballistic imaging through turbid media. In: 2007 IEEE INTERNATIONAL CONFERENCE ON IMAGE PROCESSING, VOLS 1-7. IEEE; 2007. p. 1665-+.
Farsiu S, Milanfar P. Multi-scale statistical detection and ballistic imaging through turbid media. Proceedings - International Conference on Image Processing, ICIP. 2006 Dec 1;3.
Takeda H, Farsiu S, Milanfar P. Regularized kernel regression for image deblurring. Conference Record - Asilomar Conference on Signals, Systems and Computers. 2006 Dec 1;1914–8.
Takeda H, Farsiu S, Milanfar P. Robust kernel regression for restoration and reconstruction of images from sparse noisy data. Proceedings - International Conference on Image Processing, ICIP. 2006 Dec 1;1257–60.
Farsiu S, Elad M, Milanfar P. A practical approach to super-resolution. Proceedings of SPIE - The International Society for Optical Engineering. 2006 May 1;6077.
Farsiu S, Elad M, Milanfar P. Video-to-video dynamic super-resolution for grayscale and color sequences. Eurasip Journal on Applied Signal Processing. 2006 Apr 19;2006.
Farsiu S, Elad M, Milanfar P. Multiframe demosaicing and super-resolution of color images. IEEE Trans Image Process. 2006 Jan;15(1):141–59.
Takeda H, Farsiu S, Milanfar P. Image denoising by adaptive kernel regression. Conference Record - Asilomar Conference on Signals, Systems and Computers. 2005 Dec 1;2005:1660–5.
Farsiu S, Elad M, Milanfar P. Constrained, globally optimal, multi-frame motion estimation. IEEE Workshop on Statistical Signal Processing Proceedings. 2005 Jan 1;2005:1396–401.
Farsiu S, Robinson D, Elad M, Milanfar P. Dynamic demosaicing and color super-resolution of video sequences. Proceedings of SPIE - The International Society for Optical Engineering. 2004 Dec 1;5562:169–78.
Farsiu S, Elad M, Milanfar P. Multi-frame demosaicing and super-resolution from under-sampled color images. Proceedings of SPIE - The International Society for Optical Engineering. 2004 Dec 1;5299:222–33.
Farsiu S, Robinson MD, Elad M, Milanfar P. Fast and robust multiframe super resolution. IEEE transactions on image processing : a publication of the IEEE Signal Processing Society. 2004 Oct;13(10):1327–44.
Farsiu S, Robinson D, Elad M, Milanfar P. Advances and challenges in super-resolution. International Journal of Imaging Systems and Technology. 2004 Sep 27;14(2):47–57.
Farsiu S, Robinson D, Elad M, Milanfar P. Fast and robust super-resolution. IEEE International Conference on Image Processing. 2003 Dec 17;2:291–4.
Farsiu S, Robinson D, Elad M, Milanfar P. Robust Shift and Add Approach to Super-Resolution. Proceedings of SPIE - The International Society for Optical Engineering. 2003 Dec 1;5203:121–30.
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