Coherent Fourier scatterometry reveals nerve fiber crossings in the brain

Miriam Menzel and Silvania F. Pereira

Biomed. Opt. Express 11(8), 4735-4758 (2020)  View: HTML | PDF

Resolving tissue chromophore concentration at MRI resolution using multi-wavelength photo-magnetic imaging

Maha Algarawi, Hakan Erkol, Alex Luk, Seunghoon Ha, Mehmet B. Ünlü, Gultekin Gulsen, and Farouk Nouizi

Biomed. Opt. Express 11(8), 4244-4254 (2020)  View: HTML | PDF

Spatial scanning of a sample with two-dimensional angle-resolved low-coherence interferometry for analysis of anisotropic scatterers

Ge Song, Zachary A. Steelman, Wesley Kendall, Han Sang Park, and Adam Wax

Biomed. Opt. Express 11(8), 4419-4430 (2020)  View: HTML | PDF

Optical Incoherence Tomography: a method to generate tomographic retinal cross-sections with non-interferometric adaptive optics ophthalmoscopes

Pedro Mecê, Elena Gofas-Salas, Michel Paques, Kate Grieve, and Serge Meimon

Biomed. Opt. Express 11(8), 4069-4084 (2020)  View: HTML | PDF  [Suppl. Mat. (4)]

A wide field-of-view, modular, high-density diffuse optical tomography system for minimally constrained three-dimensional functional neuroimaging

Hubin Zhao, Sabrina Brigadoi, Danial Chitnis, Enrico De Vita, Marco Castellaro, Samuel Powell, Nicholas L. Everdell, and Robert J. Cooper

Biomed. Opt. Express 11(8), 4110-4129 (2020)  View: HTML | PDF

Image reconstruction for novel time domain near infrared optical tomography: towards clinical applications

Jingjing Jiang, Aldo Di Costanzo Mata, Scott Lindner, Chao Zhang, Edoardo Charbon, Martin Wolf, and Alexander Kalyanov

Biomed. Opt. Express 11(8), 4723-4734 (2020)  View: HTML | PDF

Two step convolutional neural network for automatic glottis localization and segmentation in stroboscopic videos

Varun Belagali, Achuth Rao M V, Pebbili Gopikishore, Rahul Krishnamurthy, and Prasanta Kumar Ghosh

Biomed. Opt. Express 11(8), 4695-4713 (2020)  View: HTML | PDF

Deconvolution for multimode fiber imaging: modeling of spatially variant PSF

Raphaël Turcotte, Eusebiu Sutu, Carla C. Schmidt, Nigel J. Emptage, and Martin J. Booth

Biomed. Opt. Express 11(8), 4759-4771 (2020)  View: HTML | PDF  [Suppl. Mat. (1)]

zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging

Hanqing Zhang, Laura Waldmann, Remy Manuel, Henrik Boije, Tatjana Haitina, and Amin Allalou

Biomed. Opt. Express 11(8), 4290-4305 (2020)  View: HTML | PDF  [Suppl. Mat. (1)]

First experience with spatial frequency domain imaging and red-light excitation of protoporphyrin IX fluorescence during tumor resection

Dennis J. Wirth, Mira Sibai, Brian C. Wilson, David W. Roberts, and Keith Paulsen

Biomed. Opt. Express 11(8), 4306-4315 (2020)  View: HTML | PDF

High-throughput 3D imaging of single cells with light-sheet fluorescence microscopy on chip

Federico Sala, Michele Castriotta, Petra Paiè, Andrea Farina, Sarah D’Annunzio, Alessio Zippo, Roberto Osellame, Francesca Bragheri, and Andrea Bassi

Biomed. Opt. Express 11(8), 4397-4407 (2020)  View: HTML | PDF  [Suppl. Mat. (3)]

Frequency-doubled femtosecond Er-doped fiber laser for two-photon excited fluorescence imaging

Dorota Stachowiak, Jakub Bogusławski, Aleksander Głuszek, Zbigniew Łaszczych, Maciej Wojtkowski, and Grzegorz Soboń

Biomed. Opt. Express 11(8), 4431-4442 (2020)  View: HTML | PDF

Mapping metabolism of liver tissue using two-photon FLIM

Svetlana Rodimova, Daria Kuznetsova, Nikolai Bobrov, Vadim Elagin, Vladislav Shcheslavskiy, Vladimir Zagainov, and Elena Zagaynova

Biomed. Opt. Express 11(8), 4458-4470 (2020)  View: HTML | PDF

Performance tradeoffs for single- and dual-objective open-top light-sheet microscope designs: a simulation-based analysis

Kevin W. Bishop, Adam K. Glaser, and Jonathan T. C. Liu

Biomed. Opt. Express 11(8), 4627-4650 (2020)  View: HTML | PDF

Effects of excitation light polarization on fluorescence emission in two-photon light-sheet microscopy

Giuseppe de Vito, Pietro Ricci, Lapo Turrini, Vladislav Gavryusev, Caroline Müllenbroich, Natascia Tiso, Francesco Vanzi, Ludovico Silvestri, and Francesco Saverio Pavone

Biomed. Opt. Express 11(8), 4651-4665 (2020)  View: HTML | PDF

Compact and contactless reflectance confocal microscope for neurosurgery

Jiahe Cui, Raphaël Turcotte, Karen M. Hampson, Matthew Wincott, Carla C. Schmidt, Nigel J. Emptage, Patra Charalampaki, and Martin J. Booth

Biomed. Opt. Express 11(8), 4772-4785 (2020)  View: HTML | PDF

In vivo longitudinal visualization of the brain neuroinflammatory response at the cellular level in LysM-GFP mice induced by 3-nitropropionic acid

Jingu Lee, Eunji Kong, Sujung Hong, Jieun Moon, and Pilhan Kim

Biomed. Opt. Express 11(8), 4835-4847 (2020)  View: HTML | PDF  [Suppl. Mat. (1)]

Changes in temperature inside an optomechanical model of the human eye during emulated transscleral cyclophotocoagulation

Simon Regal, Joe Troughton, Roger Delattre, Thierry Djenizian, and Marc Ramuz

Biomed. Opt. Express 11(8), 4548-4559 (2020)  View: HTML | PDF  [Suppl. Mat. (1)]

Reactive oxygen species explicit dosimetry to predict local tumor growth for Photofrin-mediated photodynamic therapy

Tianqi Sheng, Yihong Ong, Theresa M. Busch, and Timothy C. Zhu

Biomed. Opt. Express 11(8), 4586-4601 (2020)  View: HTML | PDF

Waveguide-based surface-enhanced Raman spectroscopy detection of protease activity using non-natural aromatic amino acids

Nina Turk, Ali Raza, Pieter Wuytens, Hans Demol, Michiel Van Daele, Christophe Detavernier, Andre Skirtach, Kris Gevaert, and Roel Baets

Biomed. Opt. Express 11(8), 4800-4816 (2020)  View: HTML | PDF

Optical coherence tomography for thyroid pathology: 3D analysis of tissue microstructure

Iulian Emil Tampu, Michaela Maintz, Daniela Koller, Kenth Johansson, Oliver Gimm, Arrigo Capitanio, Anders Eklund, and Neda Haj-Hosseini

Biomed. Opt. Express 11(8), 4130-4149 (2020)  View: HTML | PDF

In vivo assessment of vascular-targeted photodynamic therapy effects on tumor microvasculature using ultrahigh-resolution functional optical coherence tomography

Defu Chen, Wu Yuan, Hyeon-Cheol Park, and Xingde Li

Biomed. Opt. Express 11(8), 4316-4325 (2020)  View: HTML | PDF

Visualizing human photoreceptor and retinal pigment epithelium cell mosaics in a single volume scan over an extended field of view with adaptive optics optical coherence tomography

Muhammad Faizan Shirazi, Elisabeth Brunner, Marie Laslandes, Andreas Pollreisz, Christoph K. Hitzenberger, and Michael Pircher

Biomed. Opt. Express 11(8), 4520-4535 (2020)  View: HTML | PDF  [Suppl. Mat. (3)]

Semi-automated registration and segmentation for gingival tissue volume measurement on 3D OCT images

Geng Wang, Nhan Minh Le, Xiaohui Hu, Yuxuan Cheng, Steven L. Jacques, Hrebesh Subhash, and Ruikang K. Wang

Biomed. Opt. Express 11(8), 4536-4547 (2020)  View: HTML | PDF

Classification of advanced and early stages of diabetic retinopathy from non-diabetic subjects by an ordinary least squares modeling method applied to OCTA images

Jennifer Cano, William D. O’neill, Richard D. Penn, Norman P. Blair, Amir H. Kashani, Hossein Ameri, Carolyn L. Kaloostian, and Mahnaz Shahidi

Biomed. Opt. Express 11(8), 4666-4678 (2020)  View: HTML | PDF

Full-range space-division multiplexing optical coherence tomography angiography

Yongyang Huang, Jason Jerwick, Guoyan Liu, and Chao Zhou

Biomed. Opt. Express 11(8), 4817-4834 (2020)  View: HTML | PDF

Blood cancer diagnosis using ensemble learning based on a random subspace method in laser-induced breakdown spectroscopy

YanWu Chu, Feng Chen, Ziqian Sheng, Deng Zhang, Siyu Zhang, Weiliang Wang, Honglin Jin, Jianwei Qi, and LianBo Guo

Biomed. Opt. Express 11(8), 4191-4202 (2020)  View: HTML | PDF

Pathological identification of brain tumors based on the characteristics of molecular fragments generated by laser ablation combined with a spiking neural network

Geer Teng, Qianqian Wang, Haifeng Yang, Xueling Qi, Hongwei Zhang, Xutai Cui, Bushra Sana Idrees, Wenting Xiangli, Kai Wei, and M. Nouman Khan

Biomed. Opt. Express 11(8), 4276-4289 (2020)  View: HTML | PDF

Single snapshot spatial frequency domain imaging for risk stratification of diabetes and diabetic foot

Ying Li, Mingrou Guo, Xiafei Qian, Weihao Lin, Yang Zheng, Kangyuan Yu, Bixin Zeng, Zhang Xu, Chao Zheng, and M. Xu

Biomed. Opt. Express 11(8), 4471-4483 (2020)  View: HTML | PDF

Deep learning-based cell identification and disease diagnosis using spatio-temporal cellular dynamics in compact digital holographic microscopy

Timothy O’Connor, Arun Anand, Biree Andemariam, and Bahram Javidi

Biomed. Opt. Express 11(8), 4491-4508 (2020)  View: HTML | PDF

Ge on Si waveguide mid-infrared absorption spectroscopy of proteins and their aggregates

Vinita Mittal, George Devitt, Milos Nedeljkovic, Lewis G. Carpenter, Harold M. H. Chong, James S. Wilkinson, Sumeet Mahajan, and Goran Z. Mashanovich

Biomed. Opt. Express 11(8), 4714-4722 (2020)  View: HTML | PDF  [Suppl. Mat. (1)]

Lightweight UV-C disinfection system

Rosemary C. She, Dongyu Chen, Pil Pak, Deniz K. Armani, Andreas Schubert, and Andrea M. Armani

Biomed. Opt. Express 11(8), 4326-4332 (2020)  View: HTML | PDF

Excitation and emission dual-wavelength confocal metalens designed directly in the biological tissue environment for two-photon micro-endoscopy

Dongqing Sun, Yanju Yang, Shujing Liu, Yang Li, Mingyan Luo, Xiaoling Qi, and Zengguang Ma

Biomed. Opt. Express 11(8), 4408-4418 (2020)  View: HTML | PDF

Dynamic microcirculation PIPE model for functional neuroimaging, non-neuroimaging, and coherent hemodynamics spectroscopy: blood volume and flow velocity variations, and vascular autoregulation

M. Xu, Yang Zheng, Xinlin Chen, Ying Li, Weihao Lin, and Bixin Zeng

Biomed. Opt. Express 11(8), 4602-4626 (2020)  View: HTML | PDF

Photoacoustic visualization of the fluence rate dependence of photodynamic therapy

Rongkang Gao, Hao Xu, Liangjian Liu, Ying Zhang, Ting Yin, Huichao Zhou, Mingjian Sun, Ningbo Chen, Yaguang Ren, Tao Chen, Yinhao Pan, Mingbin Zheng, Tymish Y Ohulchanskyy, Rongqin Zheng, Lintao Cai, Liang Song, Junle Qu, and Chengbo Liu

Biomed. Opt. Express 11(8), 4203-4223 (2020)  View: HTML | PDF

Improving vascular imaging with co-planar mutually guided photoacoustic and diffuse optical tomography: a simulation study

Sadreddin Mahmoodkalayeh, Mehrdad Zarei, Mohammad Ali Ansari, Karl Kratkiewicz, Mohsen Ranjbaran, Rayyan Manwar, and Kamran Avanaki

Biomed. Opt. Express 11(8), 4333-4347 (2020)  View: HTML | PDF

Photoacoustic imaging of hemodynamic changes in forearm skeletal muscle during cuff occlusion

Jinge Yang, Guang Zhang, Wu Chang, Zihui Chi, Qiquan Shang, Man Wu, Teng Pan, Lin Huang, and Huabei Jiang

Biomed. Opt. Express 11(8), 4560-4570 (2020)  View: HTML | PDF

Terahertz spectroscopic diagnosis of early blast-induced traumatic brain injury in rats

Yuye Wang, Guoqiang Wang, Degang Xu, Bozhou Jiang, Meilan Ge, Limin Wu, Chuanyan Yang, Ning Mu, Shi Wang, Chao Chang, Tunan Chen, Hua Feng, and Jianquan Yao

Biomed. Opt. Express 11(8), 4085-4098 (2020)  View: HTML | PDF

Evaluation of transdermal drug delivery using terahertz pulsed imaging

Jiarui Wang, Hannah Lindley-Hatcher, Kai Liu, and Emma Pickwell-MacPherson

Biomed. Opt. Express 11(8), 4484-4490 (2020)  View: HTML | PDF

Model-based evaluation of the microhemodynamic effects of PEGylated HBOC molecules in the rat brain cortex: a laser speckle imaging study

István Portörő, Péter Mukli, László Kocsis, Péter Hermán, Dario Caccia, Michele Perrella, Andrea Mozzarelli, Luca Ronda, Domokos Mathe, and Andras Eke

Biomed. Opt. Express 11(8), 4150-4175 (2020)  View: HTML | PDF

Depth-selective data analysis for time-domain fNIRS: moments vs. time windows

Heidrun Wabnitz, Davide Contini, Lorenzo Spinelli, Alessandro Torricelli, and Adam Liebert

Biomed. Opt. Express 11(8), 4224-4243 (2020)  View: HTML | PDF

Performance of measurands in time-domain optical brain imaging: depth selectivity versus contrast-to-noise ratio

Aleh Sudakou, Lin Yang, Heidrun Wabnitz, Stanislaw Wojtkiewicz, and Adam Liebert

Biomed. Opt. Express 11(8), 4348-4365 (2020)  View: HTML | PDF

Direct estimation of the reduced scattering coefficient from experimentally measured time-resolved reflectance via Monte Carlo based lookup tables

Michael Helton, Mary-Ann Mycek, and Karthik Vishwanath

Biomed. Opt. Express 11(8), 4366-4378 (2020)  View: HTML | PDF

Second harmonic generation characterization of collagen in whole bone

Emily G. Pendleton, Kayvan F. Tehrani, Ruth P. Barrow, and Luke J. Mortensen

Biomed. Opt. Express 11(8), 4379-4396 (2020)  View: HTML | PDF

Evaluating β-amyloidosis progression in Alzheimer’s disease with Mueller polarimetry

Mariia Borovkova, Alexander Bykov, Alexey Popov, Angelo Pierangelo, Tatiana Novikova, Jens Pahnke, and Igor Meglinski

Biomed. Opt. Express 11(8), 4509-4519 (2020)  View: HTML | PDF  [Suppl. Mat. (1)]

Characterizing dynamic cerebral vascular reactivity using a hybrid system combining time-resolved near-infrared and diffuse correlation spectroscopy

Daniel Milej, Marwan Shahid, Androu Abdalmalak, Ajay Rajaram, Mamadou Diop, and Keith St. Lawrence

Biomed. Opt. Express 11(8), 4571-4585 (2020)  View: HTML | PDF

Optimizing infrared spectral discrimination to enhance disease diagnostics: monitoring the signatures of inflammatory bowel diseases with anti-TNFα therapy

Hemendra Ghimire, Xinjie Hu, Gengsheng Qin, and A. G. Unil Perera

Biomed. Opt. Express 11(8), 4679-4694 (2020)  View: HTML | PDF

Hematocrit significantly confounds diffuse correlation spectroscopy measurements of blood flow

Eashani Sathialingam, Evelyn Kendall Williams, Seung Yup Lee, Courtney E. McCracken, Wilbur A. Lam, and Erin M. Buckley

Biomed. Opt. Express 11(8), 4786-4799 (2020)  View: HTML | PDF

Testing the effect of ocular aberrations in the perceived transverse chromatic aberration

Sara Aissati, Maria Vinas, Clara Benedi-Garcia, Carlos Dorronsoro, and Susana Marcos

Biomed. Opt. Express 11(8), 4052-4068 (2020)  View: HTML | PDF

Multimodal affine registration for ICGA and MCSL fundus images of high myopia

Gaohui Luo, Xinjian Chen, Fei Shi, Yunzhen Peng, Dehui Xiang, Qiuying Chen, Xun Xu, Weifang Zhu, and Ying Fan

Biomed. Opt. Express 11(8), 4443-4457 (2020)  View: HTML | PDF

Emphysema quantified: mapping regional airway dimensions using 2D phase contrast X-ray imaging

Marcus J. Kitchen, Genevieve A. Buckley, Lauren T. Kerr, Katie L. Lee, Kentaro Uesugi, Naoto Yagi, and Stuart B. Hooper

Biomed. Opt. Express 11(8), 4176-4190 (2020)  View: HTML | PDF

Optical properties of PlatSil SiliGlass tissue-mimicking phantoms: erratum

Peter Naglič, Yevhen Zelinskyi, Luka Rogelj, Jošt Stergar, Matija Milanič, Jure Novak, Borut Kumperščak, and Miran Bürmen

Biomed. Opt. Express 11(8), 4275-4275 (2020)  View: HTML | PDF