Dr Roarke Horstmeyer

Research Interests

Computational optics, machine learning, and designing new algorithms for image processing. A main focus is to improve how we capture and use images of microscopic phenomena within a range of biomedical contexts. In general, I like to create new optical devices that can improve the utility of the information that we can gather about the world around us.

Bio

Roarke Horstmeyer is an assistant professor within Duke's Biomedical Engineering Department. He develops microscopes, cameras and computer algorithms for a wide range of applications, from forming 3D reconstructions of organisms to detecting neural activity deep within tissue. His areas of interest include optics, signal processing, optimization and neuroscience. Most recently, Dr. Horstmeyer was a guest professor at the University of Erlangen in Germany and an Einstein postdoctoral fellow at Charitu00e8 Medical School in Berlin. Prior to his time in Germany, Dr. Horstmeyer earned a PhD from Caltechu2019s electrical engineering department in 2016, a master of science degree from the MIT Media Lab in 2011, and a bachelors degree in physics and Japanese from Duke University in 2006.

Education

• B.S. Duke University, 2006
• Ph.D. California Institute of Technology, 2016

Trainings & Certifications

• Guest Professor, Friedrich-Alexander-Universitu00e4t Erlangen-Nu00fcrnberg (Germany) 2018 - 2022 (2018 - 2022) Friedrich-Alexander-Universitu00e4t Erlangen-Nu00fcrnberg (Germany)

Positions

• Associate Professor of Biomedical Engineering
• Associate Professor in the Department of Electrical and Computer Engineering
• Faculty Network Member of the Duke Institute for Brain Sciences

Courses Taught

• ISS 796T: Bass Connections Information, Society & Culture Research Team
• ISS 795T: Bass Connections Information, Society & Culture Research Team
• ISS 396T: Bass Connections Information, Society & Culture Research Team
• ISS 395T: Bass Connections Information, Society & Culture Research Team
• EGR 393: Research Projects in Engineering
• EGR 101L: Engineering Design and Communication
• BME 793: Graduate Independent Study
• BME 792: Continuation of Graduate Independent Study
• BME 791: Graduate Independent Study
• BME 789: Internship in Biomedical Engineering
• BME 548L: Machine Learning and Imaging (GE, IM)
• BME 494: Projects in Biomedical Engineering (GE)

Publications

• Wu MM, Kreiss L, Wayne MA, Robinson MB, Bruschini C, Charbon E, et al. Autocorrelation Bias in Diffuse Correlation Spectroscopy Observable via SPAD Arrays. IEEE Journal of Selected Topics in Quantum Electronics. 2026 Jul 1;32(4).
• Deb D, Both G-J, Bezzam E, Kohli A, Yang S, Chaware A, et al. Chromatix: a differentiable, GPU-accelerated wave-optics library. Nature methods. 2026 Jul;23(7):1388u201398.
• Gustafson KE, Sarin N, He J, Ying G-S, Tai V, Winter KP, et al. Very Preterm Infant Retinal Microanatomy at 36 Weeks' Postmenstrual Age and 2-Year Neurodevelopment. JAMA Ophthalmol. 2026 Jun 4;
• Cherkkil A, Viavattine Z, Kota V, Saxena K, Surinach D, Oladepo I, et al. CortexCAM: A Camera Array Microscope for Cortex-Wide Cellular Imaging in Freely Locomoting Mice. Res Sq. 2026 Jun 2;
• Bao X, Hu Z-D, Kreiss L, Lerner J, Horstmeyer R. Towards a mobile quantitative phase imaging microscope with smartphone phase-detection sensors. Biomedical optics express. 2026 Apr;17(4):1611u201331.
• Kreiss L, Chaware A, Roohian M, Lemire S, Thoma O-M, Carlu00e9 B, et al. Cell-MICS: Detecting Immune Cells With Label-Free Two-Photon Autofluorescence and Deep Learning. Journal of biophotonics. 2026 Apr;19(4):e70260.
• Deb D, Both G-J, Bezzam E, Kohli A, Yang S, Chaware A, et al. Chromatix: a differentiable, GPU-accelerated wave-optics library. bioRxiv. 2026 Mar 25;
• Tang SJ, Cook CB, Foust J, Chen H, Shi H, Harfouche M, et al. Real-time 3D reconstruction and display of synchronized Fourier lightfield video for novel microsurgical applications. In: Progress in Biomedical Optics and Imaging Proceedings of SPIE. 2026.
• Lerner JF, Miao Y, Kim K, Kreiu00df LA, Harfouche M, Hickey JW, et al. Extremely high-Throughput quantitative phase imaging of live-cells with a multi-camera array microscope. In: Progress in Biomedical Optics and Imaging Proceedings of SPIE. 2026.
• Chul Lee K, Chae H, Kim J, Kreiss L, Kim H, Guk Kang Y, et al. Semi-supervised virtual staining using learned-illumination Fourier ptychography for high-speed label-free histopathology. Jphys Photonics. 2026 Mar 1;8(1).
• Bao X, Kreiss L, Cook CB, Gong H, Harfouche M, Horstmeyer R. Wide-field reflective imaging with an epi-illumination multi-camera array microscope. Optics express. 2026 Mar;34(6):9739u201352.
• Chen H, Li K, Kreiss L, Reamey P, Pierce LX, Zhang R, et al. High-throughput multi-camera array microscope platform for automated 3D behavioral analysis of swimming zebrafish larvae. Communications biology. 2026 Jan;9(1):141.
• Bercaw JR, Bradley PX, Otap CC, Heckelman LN, Tamayo KS, Owusu-Akyaw KA, et al. A deep learning-based approach for measuring patellar cartilage deformations from knee MR images. J Biomech. 2025 Nov;192:112930.
• Yang X, Chen H, Kreiss L, Cook CB, Kuczewski G, Harfouche M, et al. Curvature-adaptive gigapixel microscopy at submicron resolution and centimeter scale. Optics letters. 2025 Oct;50(19):5977u201380.
• Hu J, Cherkkil A, Surinach DA, Oladepo I, Hossain R, Fausner S, et al. Pan-cortical cellular imaging in freely behaving mice using a miniaturized micro-camera array microscope (mini-MCAM). Science advances. 2025 Oct;11(44):eadt3634.
• Cook CB, Zhou KC, Bohlen M, Harfouche M, Kim K, Reamey P, et al. Fourier Lightfield Multiview Stereoscope for Large Field-of-View 3D Imaging in Microsurgical Settings. Advanced photonics nexus. 2025 Jun;4(4):046008.
• Nomdedeu-Sancho G, Edenhoffer N, Gorkun A, Bechtel J, Doman J, Schaaf C, et al. Development of skin-integrated melanoma organoids to study the tumor microenvironment-mediated mechanisms of melanoma progression and metastasis in vitro. In: Journal of Clinical Oncology. 2025. p. e21547u2013e21547.
• Zhou KC, Cook C, Chakraborty A, Bagwell J, Ju00f6nsson J, Lee KC, et al. High-speed 4D fluorescence light field tomography of whole freely moving organisms. Optica. 2025 May 20;12(5):674u201384.
• Kreiss L, Wu M, Wayne M, Xu S, McKee P, Dwamena D, et al. Beneath the surface: revealing deep-tissue blood flow in human subjects with massively parallelized diffuse correlation spectroscopy. Neurophotonics. 2025 Apr;12(2):025007.
• Kreiss L, Tang W, Balla R, Yang X, Chaware A, Kim K, et al. Recording dynamic facial micro-expressions with a multi-focus camera array. Biomedical optics express. 2025 Feb;16(2):617u201327.
• Shi B, Veeraraghavan A, Horstmeyer R, Heidrich W. Guest Editorial: Introduction to the Special Section on Computational Photography. IEEE Transactions on Pattern Analysis and Machine Intelligence. 2025 Jan 1;47(9):7179u201381.
• Wang R, Zhao Q, Loetgering L, Allars F, Hong Z, Pennycook TJ, et al. Ptychography at all wavelengths. Nature reviews Methods primers. 2025 Jan;5:68.
• Zhou KC, Harfouche M, Zheng M, Ju00f6nsson J, Lee KC, Kim K, et al. Computational 3D topographic microscopy from terabytes of data per sample. Journal of Big Data. 2024 Dec 1;11(1).
• Kreiss L, Tang W, Balla R, Yang X, Chaware A, Kim K, et al. Recording dynamic facial micro-expressions with a multi-focus camera array. 2024.
• Kim K, Chaware A, Cook CB, Xu S, Abdelmalak M, Cooke C, et al. Rapid 3D imaging at cellular resolution for digital cytopathology with a multi-camera array scanner (MCAS). Npj Imaging. 2024 Oct 1;2(1):39.
• Kim K, Chaware A, Cook CB, Xu S, Abdelmalak M, Cooke C, et al. Rapid 3D imaging at cellular resolution for digital cytopathology with a multi-camera array scanner (MCAS). 2024.
• Wang Q, Pan M, Kreiss L, Samaei S, Carp SA, Johansson JD, et al. A comprehensive overview of diffuse correlation spectroscopy: Theoretical framework, recent advances in hardware, analysis, and applications. NeuroImage. 2024 Sep;298:120793.
• Hu J, Cherkkil A, Surinach DA, Oladepo I, Hossain RF, Fausner S, et al. Pan-cortical cellular imaging in freely behaving mice using a miniaturized micro-camera array microscope (mini-MCAM). bioRxiv. 2024 Jul 29;
• Horstmeyer R, Kreiss L. Deep focusing with broadband light. Nature Photonics. 2024 Jul 1;18(7):654u20135.
• Lee KC, Chae H, Xu S, Lee K, Horstmeyer R, Lee SA, et al. Anisotropic regularization for sparsely sampled and noise-robust Fourier ptychography. Optics express. 2024 Jul;32(14):25343u201361.
• Wang Q, Pan M, Kreiss L, Samaei S, Carp SA, Johansson JD, et al. A comprehensive overview of diffuse correlation spectroscopy: theoretical framework, recent advances in hardware, analysis, and applications. 2024.
• Kreiss L, Wu M, Wayne M, Xu S, McKee P, Dwamena D, et al. Beneath the Surface: Revealing Deep-Tissue Blood Flow in Human Subjects with Massively Parallelized Diffuse Correlation Spectroscopy. 2024.
• Xu S, Yang X, Ritter P, Dai X, Lee KC, Kreiss L, et al. Tensorial tomographic Fourier ptychography with applications to muscle tissue imaging. Advanced Photonics. 2024 Mar 1;6(2).
• Chaware A, Kim K, Abdelmalak M, Foo W-C, Jiang XS, Horstmeyer R. Rapid Automated Adenocarcinoma Detection Using a 16-Gigapixel Parallelized Camera Array Microscope. In: LABORATORY INVESTIGATION. 2024. p. S394u20135.
• Kreiss L, Zhou KC, Cook CB, Xu S, Chaware A, Horstmeyer R. Innovations in signal/image processing and data analysis in optical microscopy. In: Biophotonics and Biosensing from Fundamental Research to Clinical Trials Through Advances of Signal and Image Processing. 2024. p. 349u201389.
• Susstrunk S, Veeraraghavan A, Horstmeyer R, Heidrich W. Message from the Chairs. 2024 IEEE International Conference on Computational Photography Iccp 2024 Proceedings. 2024 Jan 1;Xu2013XI.
• Wu MM, Kreiss L, Wayne MA, Robinson MB, Bruschini C, Charbon E, et al. Efficient signal extraction for diffuse correlation spectroscopy with SPAD arrays at low photon regimes. In: Microscopy Histopathology and Analytics Microscopy 2024 in Proceedings Optica Biophotonics Congress Biomedical Optics 2024 Translational Microscopy Oct Ots Brain Part of Optica Biophotonics Congress Biomedical Optics. 2024.
• Wu MM, Kreiss L, Wayne MA, Robinson MB, Bruschini C, Charbon E, et al. Efficient signal extraction for diffuse correlation spectroscopy with SPAD arrays at low photon regimes. In: Optical Tomography and Spectroscopy, OT and S 2024 in Proceedings Optica Biophotonics Congress: Biomedical Optics 2024, Translational, Microscopy, OCT, OTS, BRAIN - Part of Optica Biophotonics Congress: Biomedical Optics. 2024.
• Cherkkil A, Hu J, Oladepo I, Fausner S, Surinach D, Peters R, et al. Micro-camera Arrays for Ultra-widefield, Multi-site Cellular Resolution Calcium Imaging Across the Dorsal Cortex of Behaving Mice. In: Optics and the Brain, BRAIN 2024 in Proceedings Optica Biophotonics Congress: Biomedical Optics 2024, Translational, Microscopy, OCT, OTS, BRAIN - Part of Optica Biophotonics Congress: Biomedical Optics. 2024.
• Wu MM, Kreiss L, Wayne MA, Robinson MB, Bruschini C, Charbon E, et al. Efficient signal extraction for diffuse correlation spectroscopy with SPAD arrays at low photon regimes. In: Optics and the Brain, BRAIN 2024 in Proceedings Optica Biophotonics Congress: Biomedical Optics 2024, Translational, Microscopy, OCT, OTS, BRAIN - Part of Optica Biophotonics Congress: Biomedical Optics. 2024.
• Zhou K, Cook C, Chakraborty A, Bagwell J, Ju00f6nsson J, Lee KC, et al. High-speed 4D fluorescence light field tomography of whole freely moving organisms. bioRxiv. 2024.
• Wu MM, Kreiss L, Wayne MA, Robinson MB, Bruschini C, Charbon E, et al. Efficient signal extraction for diffuse correlation spectroscopy with SPAD arrays at low photon regimes. In: Optical Tomography and Spectroscopy Ot and S 2024 in Proceedings Optica Biophotonics Congress Biomedical Optics 2024 Translational Microscopy Oct Ots Brain Part of Optica Biophotonics Congress Biomedical Optics. 2024.
• Cherkkil A, Hu J, Oladepo I, Fausner S, Surinach D, Peters R, et al. Micro-camera Arrays for Ultra-widefield, Multi-site Cellular Resolution Calcium Imaging Across the Dorsal Cortex of Behaving Mice. In: Optics and the Brain Brain 2024 in Proceedings Optica Biophotonics Congress Biomedical Optics 2024 Translational Microscopy Oct Ots Brain Part of Optica Biophotonics Congress Biomedical Optics. 2024.
• Lee KC, Che H, Kim J, Bae D, Horstmeyer R, Lee SA. Semi-Supervised Virtual Staining for High-Throughput and Label-Free Histopathology. In: Conference on Lasers and Electro Optics Pacific Rim CLEO PR 2024 in Proceedings 2024 Conference on Lasers and Electro Optics Pacific Rim CLEO PR. 2024.
• Kreiss L, Jiang S, Li X, Xu S, Zhou KC, Lee KC, et al. Digital staining in optical microscopy using deep learningu00a0- a review. Photonix. 2023 Dec 1;4(1).
• Mu00fchlberg A, Ritter P, Langer S, Goossens C, Nu00fcbler S, Schneidereit D, et al. SEMPAI: a Self-Enhancing Multi-Photon Artificial Intelligence for Prior-Informed Assessment of Muscle Function and Pathology. Advanced science (Weinheim, Baden-Wurttemberg, Germany). 2023 Oct;10(28):e2206319.
• Wu MM, Horstmeyer R, Carp SA. scatterBrains: an open database of human head models and companion optode locations for realistic Monte Carlo photon simulations. Journal of biomedical optics. 2023 Oct;28(10):100501.
• Bian L, Song H, Peng L, Chang X, Yang X, Horstmeyer R, et al. High-resolution single-photon imaging with physics-informed deep learning. Nature communications. 2023 Sep;14(1):5902.
• Zhou KC, Harfouche M, Zheng M, Ju00f6nsson J, Lee KC, Appel R, et al. Computational 3D topographic microscopy from terabytes of data per sample. 2023.
• Xu S, Dai X, Ritter P, Lee KC, Yang X, Kreiss L, et al. Tensorial tomographic Fourier Ptychography with applications to muscle tissue imaging. 2023.
• Zhou KC, Harfouche M, Cooke CL, Park J, Konda PC, Kreiss L, et al. Parallelized computational 3D video microscopy of freely moving organisms at multiple gigapixels per second. Nat Photonics. 2023 May;17(5):442u201350.
• Yang X, Harfouche M, Zhou KC, Kreiss L, Xu S, Chandra Konda P, et al. Multi-modal imaging using a cascaded microscope design. Optics letters. 2023 Apr;48(7):1658u201361.
• Harfouche M, Kim K, Zhou KC, Konda PC, Sharma S, Thomson EE, et al. Imaging across multiple spatial scales with the multi-camera array microscope. Optica. 2023 Apr 1;10(4):471u201380.
• Kreiss L, Jiang S, Li X, Xu S, Zhou KC, Mu00fchlberg A, et al. Digital staining in optical microscopy using deep learning -- a review. 2023.
• Kim K, Chaware A, Kreiss L, Harfouche M, Foo W-C, Taylor-Cho I, et al. Rapid On-site Evaluation of Thyroid Fine Needle Aspiration Using a Parallelized 16-Gigapixel Microscope. In: LABORATORY INVESTIGATION. 2023. p. S1548u20139.
• Zhou KC, Harfouche M, Cooke CL, Park J, Konda PC, Kreiss L, et al. Parallelized computational 3D video microscopy of freely moving organisms at multiple gigapixels per second. 2023.
• Zhou KC, Harfouche M, Cooke CL, Park J, Konda PC, Kreiss L, et al. Parallelized computational 3D video microscopy of freely moving organisms at multiple gigapixels per second. ArXiv. 2023 Jan 19;
• Zhou KC, Harfouche M, Zheng M, Ju00f6nsson J, Lee KC, Appel R, et al. Computational 3D surface microscopy from terabytes of data with a self-supervised reconstruction algorithm. In: Imaging Systems and Applications in Proceedings Optica Imaging Congress 3D Cosi Dh Flatoptics is Pcaop Part of Imaging and Applied Optics Congress 2023. 2023.
• Zhou KC, Harfouche M, Zheng M, Ju00f6nsson J, Lee KC, Appel R, et al. Computational 3D surface microscopy from terabytes of data with a self-supervised reconstruction algorithm. In: Computational Optical Sensing and Imaging in Proceedings Optica Imaging Congress 3D Cosi Dh Flatoptics is Pcaop Part of Imaging and Applied Optics Congress 2023. 2023.
• Xu S, Dai X, Yang X, Lee KC, Kreiss L, Zhou KC, et al. Anisotropic intensity diffraction tomography. In: Computational Optical Sensing and Imaging in Proceedings Optica Imaging Congress 3D Cosi Dh Flatoptics is Pcaop Part of Imaging and Applied Optics Congress 2023. 2023.
• Xu S, Yang X, Kim K, Reamey P, Cook C, Lee KC, et al. Multi-scale speckle-plethysmography with a multi-camera array microscope. In: Computational Optical Sensing and Imaging in Proceedings Optica Imaging Congress 3D Cosi Dh Flatoptics is Pcaop Part of Imaging and Applied Optics Congress 2023. 2023.
• Lee KC, Chae H, Xu S, Lee K, Horstmeyer R, Hong BW, et al. Fourier Ptychographic Iterative Engine Based on Alternating Direction Method of Multipliers with Anisotropic Total-Variation Regularization. In: Computational Optical Sensing and Imaging in Proceedings Optica Imaging Congress 3D Cosi Dh Flatoptics is Pcaop Part of Imaging and Applied Optics Congress 2023. 2023.
• Cook C, Zhou KC, Horstmeyer R. Fourier Light Field Camera Array Microscope for Mesoscale 3D Imaging. In: 3D Image Acquisition and Display Technology Perception and Applications in Proceedings Optica Imaging Congress 3D Cosi Dh Flatoptics is Pcaop 2023. 2023.
• Kreiss L, Zhou K, Kim K, Harfouche M, Xu S, Ju00f6nsson J, et al. High-throughput imaging across multiple spatial scales with the multi-camera array microscope (MCAM). In: Proceedings of SPIE the International Society for Optical Engineering. 2023.
• Bian L, Song H, Peng L, Chang X, Yang X, Horstmeyer R, et al. Large-scale single-photon imaging. 2022.
• Thomson EE, Harfouche M, Kim K, Konda PC, Seitz CW, Cooke C, et al. Gigapixel imaging with a novel multi-camera array microscope. Elife. 2022 Dec 14;11.
• Harfouche M, Kim K, Zhou KC, Konda PC, Sharma S, Thomson EE, et al. Imaging across multiple spatial scales with the multi-camera array microscope. 2022.
• Aidukas T, Wechsler F, Loetgering L, Zhou K, Horstmeyer R. Applications and Extensions of Fourier Ptychography. Microscopy Today. 2022 Nov 1;30(6):40u20135.
• Gigan S, Katz O, De Aguiar HB, Andresen ER, Aubry A, Bertolotti J, et al. Roadmap on wavefront shaping and deep imaging in complex media. Jphys Photonics. 2022 Oct 1;4(4).
• Loetgering L, Aidukas T, Zhou KC, Wechsler F, Horstmeyer R. Fourier Ptychography Part II: Phase Retrieval and High-Resolution Image Formation. Microscopy Today. 2022 Sep 1;30(5):36u20139.
• Yang X, Harfouche M, Zhou KC, Kreiss L, Xu S, Kim K, et al. Multi-modal imaging using a cascaded microscope design. 2022.
• Xu S, Yang X, Liu W, Ju00f6nsson J, Qian R, Konda PC, et al. Imaging Dynamics Beneath Turbid Media via Parallelized Single-Photon Detection. Advanced science (Weinheim, Baden-Wurttemberg, Germany). 2022 Aug;9(24):e2201885.
• Ayaz H, Baker WB, Blaney G, Boas DA, Bortfeld H, Brady K, et al. Optical imaging and spectroscopy for the study of the human brain: status report. Neurophotonics. 2022 Aug;9(Suppl 2):S24001.
• Cooke CL, Kim K, Xu S, Chaware A, Yao X, Yang X, et al. A multiple instance learning approach for detecting COVID-19 in peripheral blood smears. PLOS Digit Health. 2022 Aug;1(8):e0000078.
• Zhou KC, Aidukas T, Loetgering L, Wechsler F, Horstmeyer R. Introduction to Fourier Ptychography: Part I. Microscopy Today. 2022 May;30(3):36u201341.
• Xu S, Dai X, Yang X, Zhou KC, Kim K, Pathak V, et al. Tensorial tomographic differential phase-contrast microscopy. 2022.
• Xu S, Liu W, Yang X, Ju00f6nsson J, Qian R, McKee P, et al. Transient motion classification through turbid volumes via parallelizedn single-photon detection and deep contrastive embedding. 2022.
• Dai X, Xu S, Yang X, Zhou KC, Glass C, Konda PC, et al. Quantitative Jones matrix imaging using vectorial Fourier ptychography. Biomed Opt Express. 2022 Mar 1;13(3):1457u201370.
• Glass C, Lafata KJ, Jeck W, Horstmeyer R, Cooke C, Everitt J, et al. The Role of Machine Learning in Cardiovascular Pathology. Can J Cardiol. 2022 Feb;38(2):234u201345.
• Yao X, Pathak V, Xi H, Chaware A, Cooke C, Kim K, et al. Increasing a microscope's effective field of view via overlapped imaging and machine learning. Optics express. 2022 Jan;30(2):1745u201361.
• Feiger B, Lorenzana-Saldivar E, Cooke C, Horstmeyer R, Bishawi M, Doberne J, et al. Evaluation of U-Net Based Architectures for Automatic Aortic Dissection Segmentation. ACM Transactions on Computing for Healthcare. 2022 Jan 1;3(1).
• Xu S, Liu W, Yang X, Ju00f6nsson J, Qian R, McKee P, et al. Transient Motion Classification Through Turbid Volumes via Parallelized Single-Photon Detection and Deep Contrastive Embedding. Frontiers in neuroscience. 2022 Jan;16:908770.
• Xu S, Yang X, Ju00f6nsson J, Chang H, Horstmeyer R. Speckle contrast diffuse correlation spectroscopy with parallelized single photon detection. In: Optics Infobase Conference Papers. 2022.
• Kim K, Zhou KC, Harfouche M, Horstmeyer R. Parallelized 16-gigapixel microscopy for rapid imaging of multiple whole slides. In: Optics Infobase Conference Papers. 2022.
• Zhou KC, Harfouche M, Cooke C, Park J, Konda P, Doman J, et al. Gigapixel-per-second, wide-field 3D topographic imaging with physics-supervised learning. In: Optics Infobase Conference Papers. 2022.
• Xu S, Dai X, Yang X, Zhou KC, Kim K, Pathak V, et al. Tensorial tomographic differential phase-contrast microscopy. In: IEEE International Conference on Computational Photography Iccp 2022. 2022.
• Gigan S, Katz O, Aguiar HBD, Andresen ER, Aubry A, Bertolotti J, et al. Roadmap on Wavefront Shaping and deep imaging in complex media. 2021.
• YANG X, KONDA PC, XU S, BIAN L, HORSTMEYER R. Quantized Fourier ptychography with binary images from SPAD cameras. Photonics Research. 2021 Oct 1;9(10):1958u201369.
• Dai X, Xu S, Yang X, Zhou KC, Glass C, Konda PC, et al. Quantitative Jones matrix imaging using vectorial Fourier ptychography. 2021 Sep 30;
• Cooke CL, Kim K, Xu S, Chaware A, Yao X, Yang X, et al. Deep Optical Blood Analysis: COVID-19 Detection as a Case Study in Next Generation Blood Screening. openRxiv. 2021.
• Xu S, Yang X, Liu W, Jonsson J, Qian R, Konda PC, et al. Imaging dynamics beneath turbid media via parallelized single-photon detection. 2021 Jul 3;
• Vu T, DiSpirito A, Li D, Wang Z, Zhu X, Chen M, et al. Deep image prior for undersampling high-speed photoacoustic microscopy. Photoacoustics. 2021 Jun;22:100266.
• Vu T, DiSpirito A, Li D, Wang Z, Zhu X, Chen M, et al. Deep image prior for undersampling high-speed photoacoustic microscopy. Photoacoustics. 2021 Jun 1;22.
• Fontes CM, Lipes BD, Liu J, Agans KN, Yan A, Shi P, et al. Ultrasensitive point-of-care immunoassay for secreted glycoprotein detects Ebola infection earlier than PCR. Sci Transl Med. 2021 Apr 7;13(588).
• Cooke C, Kim K, Xu S, Yao X, Yang X, Glass C, et al. Deep Optical Blood Analysis: COVID-19 Detection as a Case Study in Next Generation Blood Screening. In: MODERN PATHOLOGY. 2021. p. 814u20136.
• Cooke C, Kim K, Xu S, Yao X, Yang X, Glass C, et al. Deep Optical Blood Analysis: COVID-19 Detection as a Case Study in Next Generation Blood Screening. In: LABORATORY INVESTIGATION. 2021. p. 814u20136.
• DiSpirito A, Li D, Vu T, Chen M, Zhang D, Luo J, et al. Reconstructing Undersampled Photoacoustic Microscopy Images Using Deep Learning. IEEE transactions on medical imaging. 2021 Feb;40(2):562u201370.
• Liu W, Qian R, Xu S, Chandra Konda P, Ju00f6nsson J, Harfouche M, et al. Fast and sensitive diffuse correlation spectroscopy with highly parallelized single photon detection. APL Photonics. 2021 Feb 1;6(2).
• III AD, Li D, Vu T, Chen M, Zhang D, Luo J, et al. Reconstructing Undersampled Photoacoustic Microscopy Images Using Deep Learning. IEEE Trans Medical Imaging. 2021;40:562u201370.
• Yao X, Xi H, Zhou KC, Chaware A, Cooke C, Li Y, et al. Increasing a microscopeu2019s effective field of view via overlapped imaging and machine learning. Optics Infobase Conference Papers. 2021 Jan 1;
• Sharma S, Bu00e8gue A, Doman J, Harfouche M, Horstmeyer G, Horstmeyer R. High throughput acquisition and analysis of bacterial colony features using gigapixel microscopy. In: Optics Infobase Conference Papers. 2021.
• Xu S, Yang X, Konda PC, Horstmeyer R. Rapid imaging of deep-tissue motion with parallelized diffuse correlation spectroscopy. In: Optics Infobase Conference Papers. 2021.
• 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. 7531u201341.
• Cooke CL, Kong F, Chaware A, Zhou KC, Kim K, Xu R, et al. Physics-Enhanced Machine Learning for Virtual Fluorescence Microscopy. In: Proceedings of the IEEE International Conference on Computer Vision. 2021. p. 3783u201393.
• 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;
• Kim K, Konda PC, Cooke CL, Appel R, Horstmeyer R. Multi-element microscope optimization by a learned sensing network with composite physical layers. Optics letters. 2020 Oct;45(20):5684u20137.
• Chaware A, Cooke CL, Kim K, Horstmeyer R. Towards an intelligent microscope: Adaptively learned illumination for optimal sample classification. ICASSP IEEE International Conference on Acoustics Speech and Signal Processing Proceedings. 2020 May 1;2020-May:9284u20138.
• Cooke CL, Kong F, Chaware A, Zhou KC, Kim K, Xu R, et al. Physics-enhanced machine learning for virtual fluorescence microscopy. 2020 Apr 8;
• Zhou KC, Horstmeyer R. Diffraction tomography with a deep image prior. Optics express. 2020 Apr;28(9):12872u201396.
• Konda PC, Loetgering L, Zhou KC, Xu S, Harvey AR, Horstmeyer R. Fourier ptychography: current applications and future promises. Optics express. 2020 Mar;28(7):9603u201330.
• Del Hougne P, Imani MF, Diebold AV, Horstmeyer R, Smith DR. Learned Integrated Sensing Pipeline: Reconfigurable Metasurface Transceivers as Trainable Physical Layer in an Artificial Neural Network. Advanced science (Weinheim, Baden-Wurttemberg, Germany). 2020 Feb;7(3):1901913.
• Loetgering L, Baluktsian M, Keskinbora K, Horstmeyer R, Wilhein T, Schu00fctz G, et al. Generation and characterization of focused helical x-ray beams. Science advances. 2020 Feb;6(7):eaax8836.
• Chaware A, Cooke CLV, Kim K, Horstmeyer R. Towards an Intelligent Microscope: Adaptively Learned Illumination for Optimal Sample Classification. In: ICASSP. IEEE; 2020. p. 9284u20138.
• Liu W, Qian R, Xu S, Konda PC, Horstmeyer R. Fast sensitive diffuse correlation spectroscopy with a SPAD array. In: Optics Infobase Conference Papers. 2020.
• Liu W, Xu S, Qian R, Konda PC, Horstmeyer R. Classifying decorrelation events hidden beneath scattering media via SPAD array detection. In: Optics InfoBase Conference Papers. 2020.
• Dai X, Konda PC, Xu S, Horstmeyer RW. Towards a vectorial treatment of Fourier ptychographic microscopy. In: Optics Infobase Conference Papers. 2020.
• Muthumbi A, Chaware A, Kim K, Zhou KC, Konda PC, Chen R, et al. Learned sensing: jointly optimized microscope hardware for accurate image classification. Biomedical optics express. 2019 Dec;10(12):6351u201369.
• Harfouche M, Dunn TW, Naumann EA, Horstmeyer R. Imaging the behavior and neural activity of freely moving organisms with a gigapixel microscope. In: Optics Infobase Conference Papers. 2019.
• Zhong L, Konda PC, Harfouche M, Horstmeyer R. Depth tracking using a multi-aperture microscope. In: Optics Infobase Conference Papers. 2019.
• Horstmeyer R, Vellekoop IM, Judkewitz B. Transmission matrix correlations. In: Wavefront Shaping for Biomedical Imaging. 2019. p. 315u201328.
• Kadobianskyi M, Papadopoulos IN, Chaigne T, Horstmeyer R, Judkewitz B. Scattering correlations of time-gated light. Optica. 2018 Apr 20;5(4):389u201394.
• Horstmeyer R, Chen RY, Kappes B, Judkewitz B. Convolutional neural networks that teach microscopes how to image. 2017 Sep 21;
• Osnabrugge G, Horstmeyer R, Papadopoulos IN, Judkewitz B, Vellekoop IM. Generalized optical memory effect. Optica. 2017 Aug 20;4(8):886u201392.
• Ryu D, Wang Z, He K, Zheng G, Horstmeyer R, Cossairt O. Subsampled phase retrieval for temporal resolution enhancement in lensless on-chip holographic video. Biomedical optics express. 2017 Mar;8(3):1981u201395.
• Wang Z, Dai Q, Ryu D, He K, Horstmeyer R, Katsaggelos AK, et al. Dictionary-based phase retrieval for space-time super resolution using lens-free on-chip holographic video. In: Optics Infobase Conference Papers. 2017.
• Wang Z, Ryu D, He K, Horstmeyer R, Katsaggelos A, Cossairt O. High-speed holographic imaging using compressed sensing and phase retrieval. In: Proceedings of SPIE the International Society for Optical Engineering. 2017.
• Ryu D, Wang Z, He K, Horstmeyer R, Cossairt O. Subsampled Phase Retrieval for On-chip Lensless Holographic Video. 2016 Dec 7;
• Holloway J, Asif MS, Sharma MK, Matsuda N, Horstmeyer R, Cossairt O, et al. Toward Long-Distance Subdiffraction Imaging Using Coherent Camera Arrays. IEEE Transactions on Computational Imaging. 2016 Sep 1;2(3):251u201365.
• Horstmeyer R, Chung J, Ou X, Zheng G, Yang C. Diffraction tomography with Fourier ptychography. Optica. 2016 Aug;3(8):827u201335.
• Ou X, Chung J, Horstmeyer R, Yang C. Aperture scanning Fourier ptychographic microscopy. Biomedical optics express. 2016 Aug;7(8):3140u201350.
• Chung J, Kim J, Ou X, Horstmeyer R, Yang C. Simultaneous fluorescence and high-resolution bright-field imaging with aberration correction over a wide field-of-view with Fourier ptychographic microscopy (FPM)n(Conference Presentation). In: Brown TG, Cogswell CJ, Wilson T, editors. Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XXIII. SPIE; 2016. p. 18u201318.
• Horstmeyer R, Heintzmann R, Popescu G, Waller L, Yang C. Standardizing the resolution claims for coherent microscopy. Nature Photonics. 2016 Feb 1;10(2):68u201371.
• Chung J, Kim J, Ou X, Horstmeyer R, Yang C. Wide field-of-view fluorescence image deconvolution with aberration-estimation from Fourier ptychography. Biomedical optics express. 2016 Feb;7(2):352u201368.
• Horstmeyer R. Volumetric phase imaging using Fourier ptychography. In: Optics Infobase Conference Papers. 2016.
• Zheng G, Horstmeyer R, Yang C. Erratum : Wide-field, high-resolution Fourier ptychographic microscopy (Nature Photonics (2013)7, (739-745)). Nature Photonics. 2015 Sep 28;9(9):621.
• Judkewitz B, Horstmeyer R, Vellekoop IM, Papadopoulos IN, Yang C. Translation correlations in anisotropically scattering media. Nature Physics. 2015 Jul 31;11(8):684u20139.
• Horstmeyer R, Assawaworrarit S, Ruhrmair U, Yang C. Physically secure and fully reconfigurable data storage using optical scattering. In: Proceedings of the 2015 IEEE International Symposium on Hardware Oriented Security and Trust Host 2015. 2015. p. 157u201362.
• Horstmeyer R, Ou X, Zheng G, Willems P, Yang C. Digital pathology with Fourier ptychography. Computerized medical imaging and graphicsu202f: the official journal of the Computerized Medical Imaging Society. 2015 Jun;42:38u201343.
• Horstmeyer R, Chen RY, Ou X, Ames B, Tropp JA, Yang C. Solving ptychography with a convex relaxation. New journal of physics. 2015 May;17:053044.
• Ou X, Horstmeyer R, Zheng G, Yang C. High numerical aperture Fourier ptychography: principle, implementation and characterization. Optics express. 2015 Feb;23(3):3472u201391.
• Horstmeyer R, Ruan H, Yang C. Guidestar-assisted wavefront-shaping methods for focusing light into biological tissue. Nature photonics. 2015 Jan;9:563u201371.
• Holloway J, Asif MS, Sharma MK, Matsuda N, Horstmeyer R, Cossairt O, et al. Toward Long Distance, Sub-diffraction Imaging Using Coherent Camera Arrays. CoRR. 2015;abs/1510.08470.
• Horstmeyer R, Ou X, Chung J, Zheng G, Yang C. Overlapped Fourier coding for optical aberration removal. Optics express. 2014 Oct;22(20):24062u201380.
• Horstmeyer R, Zheng G, Ou X, Yang C. Modeling extensions of fourier ptychographic microscopy. In: Microscopy and Microanalysis. 2014. p. 370u20131.
• Dong S, Horstmeyer R, Shiradkar R, Guo K, Ou X, Bian Z, et al. Aperture-scanning Fourier ptychography for 3D refocusing and super-resolution macroscopic imaging. Optics express. 2014 Jun;22(11):13586u201399.
• Hollmann JL, Horstmeyer R, Yang C, DiMarzio CA. A model for ultrasound modulated light in a turbid medium. In: Progress in Biomedical Optics and Imaging Proceedings of SPIE. 2014.
• Horstmeyer R, Assawaworrarit S, Yang C. Reconfigurable random bit storage using polymer-dispersed liquid crystal. 2014 Mar 10;
• Hollmann JL, Horstmeyer R, Yang C, DiMarzio CA. Diffusion model for ultrasound-modulated light. Journal of biomedical optics. 2014 Mar;19(3):35005.
• Zheng G, Ou X, Horstmeyer R, Chung J, Yang C. Fourier pt ychographic microscopy. Optics and Photonics News. 2014 Jan 1;25(4):26u201333.
• Horstmeyer R, Yang C. A phase space model of Fourier ptychographic microscopy. Optics express. 2014 Jan;22(1):338u201358.
• Horstmeyer R, Judkewitz B, Vellekoop IM, Assawaworrarit S, Yang C. Physical key-protected one-time pad. Scientific reports. 2013 Dec;3:3543.
• Horstmeyer R, Judkewitz B, Vellekoop I, Yang C. Secure storage of cryptographic keys within random volumetric materials. In: CLEO Applications and Technology CLEO at 2013. 2013. p. AF1H.6.
• Ou X, Horstmeyer R, Yang C, Zheng G. Quantitative phase imaging via Fourier ptychographic microscopy. Optics letters. 2013 Nov;38(22):4845u20138.
• Zheng G, Horstmeyer R, Yang C. Wide-field, high-resolution Fourier ptychographic microscopy. Nature photonics. 2013 Sep;7(9):739u201345.
• Zheng G, Ou X, Horstmeyer R, Yang C. Characterization of spatially varying aberrations for wide field-of-view microscopy. Optics express. 2013 Jul;21(13):15131u201343.
• Judkewitz B, Wang YM, Horstmeyer R, Mathy A, Yang C. Speckle-scale focusing in the diffusive regime with time-reversal of variance-encoded light (TROVE). Nature photonics. 2013 Apr;7(4):300u20135.
• Hollmann JL, Horstmeyer R, Yang C, DiMarzio CA. Analysis and modeling of an ultrasound-modulated guide star to increase the depth of focusing in a turbid medium. Journal of biomedical optics. 2013 Feb;18(2):25004.
• Judkewitz B, Wang YM, Horstmeyer R, Mathy A, Yang C. Optical resolution imaging in the diffusive regime with time-reversal of variance-encoded light (TROVE). In: Optics in the Life Sciences. OSA; 2013. p. NTh1B.5-NTh1B.5.
• Yang C, Horstmeyer R, Zheng G. Fourier ptychographic microscopy: A method for pushing standard microscope beyond its physical limitations. In: Asia Communications and Photonics Conference ACP. 2013.
• Yang C, Horstmeyer R, Zheng G. Fourier ptychographic microscopy: A method for pushing standard microscope beyond its physical limitations. In: Asia Communications and Photonics Conference, ACP. 2013.
• Horstmeyer R, Judkewitz B, Vellekoop I, Yang C. Secure storage of cryptographic keys within random volumetric materials. In: 2013 Conference on Lasers and Electro Optics CLEO 2013. 2013.
• Horstmeyer R, Chen RY, Judkewitz B, Yang C. Markov speckle for efficient random bit generation. In: Optics express. 2012. p. 26394u2013410.
• Horstmeyer R, Oh SB, Gupta O, Raskar R. Partially coherent ambiguity functions for depth-variant point spread function design. In: Progress in Electromagnetics Research Symposium. 2011. p. 267u201372.
• Horstmeyer R. Re-designing the camera for computational photography. SPIE Newsroom. 2011 Jun 6;
• Cuypers T, Horstmeyer R, Oh SB, Bekaert P, Raskar R. Validity of Wigner distribution function for ray-based imaging. In: 2011 IEEE International Conference on Computational Photography Iccp 2011. 2011.
• Horstmeyer R, Oh SB, Raskar R. Alternative Models of the Rotating Beam. In: Digital Holography and Three-Dimensional Imaging. OSA; 2011. p. DWC23u2013DWC23.
• Kim J, Horstmeyer R, Kim IJ, Raskar R. Highlighted depth-of-field photography: Shining light on focus. ACM Transactions on Graphics. 2011 Jan 1;30(3):1u20139.
• Horstmeyer R, Oh SB. Creating aperture masks in phase space. In: Optics Infobase Conference Papers. 2010.
• Horstmeyer R, Oh SB, Raskar R. Iterative aperture mask design in phase space using a rank constraint. Optics express. 2010 Oct;18(21):22545u201355.
• Horstmeyer R, Oh SB, Raskar R. View-Dependent Displays and the Space of Light Fields. 2010 Jul 30;
• Morrison RL, Stack RA, Euliss GW, Athale RA, Necioglu BF, Horstmeyer RW, et al. Dual-band imaging system based on a compact coaxial folded optic architecture. In: Optics InfoBase Conference Papers. 2009.
• Horstmeyer R, Athale R, Euliss G. Modified light field architecture for reconfigurable multimode imaging. In: Proceedings of SPIE the International Society for Optical Engineering. 2009.
• Horstmeyer R, Euliss G, Athale R. Flexible multimodal camera using a light field architecture. In: 2009 IEEE International Conference on Computational Photography Iccp 09. 2009.
• Morrison RL, Stack RA, Euliss GW, Athale RA, Necioglu BF, Horstmeyer RW, et al. Dual-band imaging system based on a compact coaxial folded optic architecture. In: Optics Infobase Conference Papers. 2009.
• Horstmeyer R, Euliss GW, Athale RA, Morrison RL, Stack RA, Ford J. Pupil plane multiplexing for multi-domain imaging sensors. In: Proceedings of SPIE the International Society for Optical Engineering. 2008.
• Rubin RH, Ferland GJ, Chollet EE, Horstmeyer R. 12C/13C ratio in planetary nebulae from the IUE archives. Astrophysical Journal. 2004 Apr 20;605(2 I):784u201392.

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