Automatic classification of esophageal disease in gastroscopic images using an efficient channel attention deep dense convolutional neural network

Wenju Du, Nini Rao, Changlong Dong, Yingchun Wang, Dingcan Hu, Linlin Zhu, Bing Zeng, and Tao Gan

Biomed. Opt. Express 12(6), 3066-3081 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Toward a quantitative method for estimating tumour-stroma ratio in breast cancer using polarized light microscopy

Jillian Sprenger, Ciara Murray, Jigar Lad, Blake Jones, Georgia Thomas, Sharon Nofech-Mozes, Mohammadali Khorasani, and Alex Vitkin

Biomed. Opt. Express 12(6), 3241-3252 (2021)  View: HTML | PDF

Multi-color structured illumination microscopy for live cell imaging based on the enhanced image recombination transform algorithm

Tianyu Zhao, Huiwen Hao, Zhaojun Wang, Yansheng Liang, Kun Feng, Minru He, Xue Yun, Piero R. Bianco, Yujie Sun, Baoli Yao, and Ming Lei

Biomed. Opt. Express 12(6), 3474-3484 (2021)  View: HTML | PDF  [Suppl. Mat. (3)]

Acousto-optic interaction strengths in optically scattering media using high pressure acoustic pulses

David Hill, Alexander Bengtsson, Tobias Erlöv, Magnus Cinthio, and Stefan Kröll

Biomed. Opt. Express 12(6), 3196-3213 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Regional motion correction for in vivo photoacoustic imaging in humans using interleaved ultrasound images

Tobias Erlöv, Rafi Sheikh, Ulf Dahlstrand, John Albinsson, Malin Malmsjö, and Magnus Cinthio

Biomed. Opt. Express 12(6), 3312-3322 (2021)  View: HTML | PDF  [Suppl. Mat. (2)]

Model learning analysis of 3D optoacoustic mesoscopy images for the classification of atopic dermatitis

Sojeong Park, Shier Nee Saw, Xiuting Li, Mahsa Paknezhad, Davide Coppola, U. S. Dinish, Amalina Binite Ebrahim Attia, Yik Weng Yew, Steven Tien Guan Thng, Hwee Kuan Lee, and Malini Olivo

Biomed. Opt. Express 12(6), 3671-3683 (2021)  View: HTML | PDF

Noninvasive multimodal fluorescence and magnetic resonance imaging of whole-organ intervertebral discs

Wuwei Ren, Shangbin Cui, Mauro Alini, Sibylle Grad, Quanyu Zhou, Zhen Li, and Daniel Razansky

Biomed. Opt. Express 12(6), 3214-3227 (2021)  View: HTML | PDF

High resolution optical projection tomography platform for multispectral imaging of the mouse gut

Cédric Schmidt, Arielle L. Planchette, David Nguyen, Gabriel Giardina, Yoan Neuenschwander, Mathieu Di Franco, Alessio Mylonas, Adrien C. Descloux, Enrico Pomarico, Aleksandra Radenovic, and Jérôme Extermann

Biomed. Opt. Express 12(6), 3619-3629 (2021)  View: HTML | PDF  [Suppl. Mat. (2)]

Deep learning automated pathology in ex vivo microscopy

Marc Combalia, Sergio Garcia, Josep Malvehy, Susana Puig, Alba Guembe Mülberger, James Browning, Sandra Garcet, James G. Krueger, Samantha R. Lish, Rivka Lax, Jeannie Ren, Mary Stevenson, Nicole Doudican, John A. Carucci, Manu Jain, Kevin White, Jaroslav Rakos, and Daniel S. Gareau

Biomed. Opt. Express 12(6), 3103-3116 (2021)  View: HTML | PDF  [Suppl. Mat. (2)]

Rapid multi-plane phase-contrast microscopy reveals torsional dynamics in flagellar motion

Soheil Mojiri, Sebastian Isbaner, Steffen Mühle, Hongje Jang, Albert Johann Bae, Ingo Gregor, Azam Gholami, and Jörg Enderlein

Biomed. Opt. Express 12(6), 3169-3180 (2021)  View: HTML | PDF  [Suppl. Mat. (3)]

Integrated multi-wavelength microscope combining TIRFM and IRM modalities for imaging cellulases and other processive enzymes

Daguan Nong, Zachary K. Haviland, Kate Vasquez Kuntz, Ming Tien, Charles T. Anderson, and William O. Hancock

Biomed. Opt. Express 12(6), 3253-3264 (2021)  View: HTML | PDF

Single-objective high-resolution confocal light sheet fluorescence microscopy for standard biological sample geometries

Stoyan Yordanov, Konstantin Neuhaus, Raimo Hartmann, Francisco Díaz-Pascual, Lucia Vidakovic, Praveen K. Singh, and Knut Drescher

Biomed. Opt. Express 12(6), 3372-3391 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Phasor-based image segmentation: machine learning clustering techniques

Alex Vallmitjana, Belén Torrado, and Enrico Gratton

Biomed. Opt. Express 12(6), 3410-3422 (2021)  View: HTML | PDF  [Suppl. Mat. (2)]

Complex wavelet filter improves FLIM phasors for photon starved imaging experiments

P. Wang, F. Hecht, G. Ossato, S. Tille, S. E. Fraser, and J. A. Junge

Biomed. Opt. Express 12(6), 3463-3473 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Reduction of spherical and chromatic aberration in axial-scanning optical systems with tunable lenses

James A. Strother

Biomed. Opt. Express 12(6), 3530-3552 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

High-speed label-free confocal microscopy of Caenorhabditis elegans with near infrared spectrally encoded confocal microscopy

Sadaf Rashtchian, Khaled Youssef, Pouya Rezai, and Nima Tabatabaei

Biomed. Opt. Express 12(6), 3607-3618 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Large-scale, cell-resolution volumetric mapping allows layer-specific investigation of human brain cytoarchitecture

Irene Costantini, Giacomo Mazzamuto, Matteo Roffilli, Annunziatina Laurino, Filippo Maria Castelli, Mattia Neri, Giovanni Lughi, Andrea Simonetto, Erica Lazzeri, Luca Pesce, Christophe Destrieux, Ludovico Silvestri, Valerio Conti, Renzo Guerrini, and Francesco Saverio Pavone

Biomed. Opt. Express 12(6), 3684-3699 (2021)  View: HTML | PDF  [Suppl. Mat. (4)]

Multicolor structured illumination microscopy and quantitative control of polychromatic light with a digital micromirror device

Peter T. Brown, Rory Kruithoff, Gregory J. Seedorf, and Douglas P. Shepherd

Biomed. Opt. Express 12(6), 3700-3716 (2021)  View: HTML | PDF  [Suppl. Mat. (3)]

Precompensation of 3D field distortions in remote focus two-photon microscopy

Antoine M. Valera, Fiona C. Neufeldt, Paul A. Kirkby, John E. Mitchell, and R. Angus Silver

Biomed. Opt. Express 12(6), 3717-3728 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Indocyanine green dye based bimodal contrast agent tested by photoacoustic/fluorescence tomography setup

Maksim D. Mokrousov, Weylan Thompson, Sergey A. Ermilov, Tatiana Abakumova, Marina V. Novoselova, Olga A. Inozemtseva, Timofei S. Zatsepin, Vladimir P. Zharov, Ekaterina I. Galanzha, and Dmitry A. Gorin

Biomed. Opt. Express 12(6), 3181-3195 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

The LUCA device: a multi-modal platform combining diffuse optics and ultrasound imaging for thyroid cancer screening

Lorenzo Cortese, Giuseppe Lo Presti, Marta Zanoletti, Gloria Aranda, Mauro Buttafava, Davide Contini, Alberto Dalla Mora, Hamid Dehghani, Laura Di Sieno, Sixte de Fraguier, Felicia A. Hanzu, Mireia Mora Porta, An Nguyen-Dinh, Marco Renna, Bogdan Rosinski, Mattia Squarcia, Alberto Tosi, Udo M. Weigel, Stanislaw Wojtkiewicz, and Turgut Durduran

Biomed. Opt. Express 12(6), 3392-3409 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Dynamic fluorescence lifetime sensing with CMOS single-photon avalanche diode arrays and deep learning processors

Dong Xiao, Zhenya Zang, Natakorn Sapermsap, Quan Wang, Wujun Xie, Yu Chen, and David Day Uei Li

Biomed. Opt. Express 12(6), 3450-3462 (2021)  View: HTML | PDF

Segregation of neuronal-vascular components in a retinal nerve fiber layer for thickness measurement using OCT and OCT angiography

Ai Ping Yow, Bingyao Tan, Jacqueline Chua, Rahat Husain, Leopold Schmetterer, and Damon Wong

Biomed. Opt. Express 12(6), 3228-3240 (2021)  View: HTML | PDF

Imaging striae distensae: a comparison between PS-OCT and digital dermoscopy

Wai Ching Lin, Robert A. Byers, Wei Li, Simon G. Danby, Michael J. Cork, and Stephen J. Matcher

Biomed. Opt. Express 12(6), 3296-3311 (2021)  View: HTML | PDF

Approximate image synthesis in optical coherence tomography

Callum M. Macdonald and Peter R. T. Munro

Biomed. Opt. Express 12(6), 3323-3337 (2021)  View: HTML | PDF

Characterization and quantification of necrotic tissues and morphology in multicellular ovarian cancer tumor spheroids using optical coherence tomography

Feng Yan, Gokhan Gunay, Trisha I. Valerio, Chen Wang, Jayla A. Wilson, Majood S. Haddad, Maegan Watson, Michael O. Connell, Noah Davidson, Kar-Ming Fung, Handan Acar, and Qinggong Tang

Biomed. Opt. Express 12(6), 3352-3371 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

High-speed and widefield handheld swept-source OCT angiography with a VCSEL light source

Shuibin Ni, Xiang Wei, Ringo Ng, Susan Ostmo, Michael F. Chiang, David Huang, Yali Jia, J. Peter Campbell, and Yifan Jian

Biomed. Opt. Express 12(6), 3553-3570 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Origins of subdiffractional contrast in optical coherence tomography

Aya Eid, James A. Winkelmann, Adam Eshein, Allen Taflove, and Vadim Backman

Biomed. Opt. Express 12(6), 3630-3642 (2021)  View: HTML | PDF

Smartphone-based optical palpation: towards elastography of skin for telehealth applications

Rowan W. Sanderson, Qi Fang, Andrea Curatolo, Aiden Taba, Helen M. DeJong, Fiona M. Wood, and Brendan F. Kennedy

Biomed. Opt. Express 12(6), 3117-3132 (2021)  View: HTML | PDF

Integration of light scattering with machine learning for label free cell detection

Wendy Yu Wan, Lina Liu, Xiaoxuan Liu, Wei Wang, Md. Zahurul Islam, Chunhua Dong, Craig R. Garen, Michael T. Woodside, Manisha Gupta, Mrinal Mandal, Wojciech Rozmus, and Ying Yin Tsui

Biomed. Opt. Express 12(6), 3512-3529 (2021)  View: HTML | PDF

Diagnosis and staging of multiple myeloma using serum-based laser-induced breakdown spectroscopy combined with machine learning methods

Xue Chen, Yao Zhang, Xiaohui Li, Ziheng Yang, Aichun Liu, and Xin Yu

Biomed. Opt. Express 12(6), 3584-3596 (2021)  View: HTML | PDF

Rapid computational cell-rotation around arbitrary axes in 3D with multi-core fiber

Jiawei Sun, Nektarios Koukourakis, Jochen Guck, and Jürgen W. Czarske

Biomed. Opt. Express 12(6), 3423-3437 (2021)  View: HTML | PDF  [Suppl. Mat. (4)]

In vivo photoacoustic imaging for monitoring treatment outcome of corneal neovascularization with metformin eye drops

Kwok-Ho Lui, Shiying Li, Wai-sum Lo, Yanjuan Gu, and Wing-Tak Wong

Biomed. Opt. Express 12(6), 3597-3606 (2021)  View: HTML | PDF

Label-free photoacoustic microscopy: a potential tool for the live imaging of blood disorders in zebrafish

Wenzhao Yang, Wei Wang, Lili Jing, and Sung-Liang Chen

Biomed. Opt. Express 12(6), 3643-3657 (2021)  View: HTML | PDF

Study on an artificial phenomenon observed in terahertz biological imaging

Zhongbo Yang, Muyang Zhang, Dandan Li, Ligang Chen, Ailing Fu, Yanmei Liang, and Huabin Wang

Biomed. Opt. Express 12(6), 3133-3141 (2021)  View: HTML | PDF

Non-contact terahertz spectroscopic measurement of the intraocular pressure through corneal hydration mapping

Andrew Chen, Arjun Virk, Zachery Harris, Azin Abazari, Robert Honkanen, and M. Hassan Arbab

Biomed. Opt. Express 12(6), 3438-3449 (2021)  View: HTML | PDF

Choosing a model for laser speckle contrast imaging

Chang Liu, Kıvılcım Kılıç, Sefik Evren Erdener, David A. Boas, and Dmitry D. Postnov

Biomed. Opt. Express 12(6), 3571-3583 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

0.1 THz exposure affects primary hippocampus neuron gene expression via alternating transcription factor binding

Sen Shang, XingJuan Wu, Qi Zhang, Jiping Zhao, Erling Hu, Leilei Wang, and Xiaoyun Lu

Biomed. Opt. Express 12(6), 3729-3742 (2021)  View: HTML | PDF

Narrowband diffuse reflectance spectroscopy in the 900–1000 nm wavelength region to quantify water and lipid content of turbid media

Jesse H. Lam, Kelsey J. Tu, and Sehwan Kim

Biomed. Opt. Express 12(6), 3091-3102 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Recipes for diffuse correlation spectroscopy instrument design using commonly utilized hardware based on targets for signal-to-noise ratio and precision

Lorenzo Cortese, Giuseppe Lo Presti, Marco Pagliazzi, Davide Contini, Alberto Dalla Mora, Hamid Dehghani, Fabio Ferri, Jonas B. Fischer, Martina Giovannella, Fabrizio Martelli, Udo M. Weigel, Stanislaw Wojtkiewicz, Marta Zanoletti, and Turgut Durduran

Biomed. Opt. Express 12(6), 3265-3281 (2021)  View: HTML | PDF

Decoding different working memory states during an operation span task from prefrontal fNIRS signals

Ting Chen, Cui Zhao, Xingyu Pan, Junda Qu, Jing Wei, Chunlin Li, Ying Liang, and Xu Zhang

Biomed. Opt. Express 12(6), 3495-3511 (2021)  View: HTML | PDF  [Suppl. Mat. (1)]

Witnessing the survival of time-energy entanglement through biological tissue and scattering media

Daniel J. Lum, Michael D. Mazurek, Alexander Mikhaylov, Kristen M. Parzuchowski, Ryan N. Wilson, Ralph Jimenez, Thomas Gerrits, Martin J. Stevens, Marcus T. Cicerone, and Charles H. Camp

Biomed. Opt. Express 12(6), 3658-3670 (2021)  View: HTML | PDF

Peripheral vision and hazard detection with average phakic and pseudophakic optical errors

Abinaya Priya Venkataraman, Robert Rosén, Aixa Alarcon Heredia, Patricia Piers, Carmen Canovas Vidal, and Linda Lundström

Biomed. Opt. Express 12(6), 3082-3090 (2021)  View: HTML | PDF

Automated image processing pipeline for adaptive optics scanning light ophthalmoscopy

Alexander E. Salmon, Robert F. Cooper, Min Chen, Brian Higgins, Jenna A. Cava, Nickolas Chen, Hannah M. Follett, Mina Gaffney, Heather Heitkotter, Elizabeth Heffernan, Taly Gilat Schmidt, and Joseph Carroll

Biomed. Opt. Express 12(6), 3142-3168 (2021)  View: HTML | PDF  [Suppl. Mat. (3)]

Binocular dynamics of accommodation, convergence, and pupil size in myopes

Vahid Pourreza Ghoushchi, Juan Mompeán, Pedro M. Prieto, and Pablo Artal

Biomed. Opt. Express 12(6), 3282-3295 (2021)  View: HTML | PDF

Optical design and performance of a trifocal sinusoidal diffractive intraocular lens

Fidel Vega, Maite Valentino, Franco Rigato, and María S. Millán

Biomed. Opt. Express 12(6), 3338-3351 (2021)  View: HTML | PDF

Light scattering in intraocular lenses explanted 15 to 40 years after surgery

Jorge L. Alio, Augusto Arias, Francesco D’Oria, Francesca Toto, Jorge Alio Del Barrio, Raul Duarte, and Pablo Artal

Biomed. Opt. Express 12(6), 3485-3494 (2021)  View: HTML | PDF