Journal papers
Zachary F Phillips; Sarah Dean; Benjamin Recht; Laura Waller
High-throughput fluorescence microscopy using multi-frame motion deblurring Journal Article
In: Biomedical Optics Express, vol. 11, no. 1, pp. 281–300, 2019.
Links | BibTeX | Tags: deconvolution, fluorescence imaging, high-throughput, motion deblur
@article{phillips2020high,
title = {High-throughput fluorescence microscopy using multi-frame motion deblurring},
author = { Zachary F Phillips and Sarah Dean and Benjamin Recht and Laura Waller},
url = {https://doi.org/10.1364/BOE.11.000281},
doi = {10.1364/BOE.11.000281},
year = {2019},
date = {2019-12-16},
journal = {Biomedical Optics Express},
volume = {11},
number = {1},
pages = {281--300},
publisher = {Optical Society of America},
keywords = {deconvolution, fluorescence imaging, high-throughput, motion deblur},
pubstate = {published},
tppubtype = {article}
}
Li-Hao Yeh; Shwetadwip Chowdhury; Nicole A Repina; Laura Waller
Speckle-structured illumination for 3D phase and fluorescence computational microscopy Journal Article
In: Biomedical optics express, vol. 10, no. 7, pp. 3635–3653, 2019.
Links | BibTeX | Tags: 3D imaging, high-throughput, multiple-scattering, speckle
@article{yeh2019speckle,
title = {Speckle-structured illumination for 3D phase and fluorescence computational microscopy},
author = { Li-Hao Yeh and Shwetadwip Chowdhury and Nicole A Repina and Laura Waller},
url = {https://doi.org/10.1364/BOE.10.003635},
doi = {10.1364/BOE.10.003635},
year = {2019},
date = {2019-07-01},
journal = {Biomedical optics express},
volume = {10},
number = {7},
pages = {3635--3653},
publisher = {Optical Society of America},
keywords = {3D imaging, high-throughput, multiple-scattering, speckle},
pubstate = {published},
tppubtype = {article}
}
Henry Pinkard; Zachary F Phillips; Arman Babakhani; Daniel A Fletcher; Laura Waller
Deep learning for single-shot autofocus microscopy Journal Article
In: Optica, vol. 6, no. 6, pp. 794–797, 2019.
Links | BibTeX | Tags: algorithms, high-throughput, LED array
@article{pinkard2019deep,
title = {Deep learning for single-shot autofocus microscopy},
author = { Henry Pinkard and Zachary F Phillips and Arman Babakhani and Daniel A Fletcher and Laura Waller},
url = {https://www.osapublishing.org/optica/abstract.cfm?uri=optica-6-6-794},
year = {2019},
date = {2019-06-20},
journal = {Optica},
volume = {6},
number = {6},
pages = {794--797},
publisher = {Optical Society of America},
keywords = {algorithms, high-throughput, LED array},
pubstate = {published},
tppubtype = {article}
}
Li-Hao Yeh; Shwetadwip Chowdhury; Laura Waller
Computational structured illumination for high-content fluorescence and phase microscopy Journal Article
In: Biomedical optics express, vol. 10, no. 4, pp. 1978–1998, 2019.
Abstract | Links | BibTeX | Tags: diffuser, fluorescence imaging, high-throughput, phase imaging, structured illumination, super-resolution
@article{yeh2019computational,
title = {Computational structured illumination for high-content fluorescence and phase microscopy},
author = { Li-Hao Yeh and Shwetadwip Chowdhury and Laura Waller},
url = {https://www.osapublishing.org/boe/abstract.cfm?uri=boe-10-4-1978
https://doi.org/10.1364/BOE.10.001978},
doi = {10.1364/BOE.10.001978},
year = {2019},
date = {2019-04-01},
journal = {Biomedical optics express},
volume = {10},
number = {4},
pages = {1978--1998},
publisher = {Optical Society of America},
abstract = {High-content biological microscopy targets high-resolution imaging across large fields-of-view (FOVs). Recent works have demonstrated that computational imaging can provide efficient solutions for high-content microscopy. Here, we use speckle structured illumination microscopy (SIM) as a robust and cost-effective solution for high-content fluorescence microscopy with simultaneous high-content quantitative phase (QP). This multi-modal compatibility is essential for studies requiring cross-correlative biological analysis. Our method uses laterally-translated Scotch tape to generate high-resolution speckle illumination patterns across a large FOV. Custom optimization algorithms then jointly reconstruct the sample’s super-resolution fluorescent (incoherent) and QP (coherent) distributions, while digitally correcting for system imperfections such as unknown speckle illumination patterns, system aberrations and pattern translations. Beyond previous linear SIM works, we achieve resolution gains of 4× the objective’s diffraction-limited native resolution, resulting in 700 nm fluorescence and 1.2 μm QP resolution, across a FOV of 2×2.7 mm 2, giving a space-bandwidth product (SBP) of 60 megapixels.},
keywords = {diffuser, fluorescence imaging, high-throughput, phase imaging, structured illumination, super-resolution},
pubstate = {published},
tppubtype = {article}
}
Li-Hao Yeh; Jonathan Dong; Jingshan Zhong; Lei Tian; Michael Chen; Gongguo Tang; Mahdi Soltanolkotabi; Laura Waller
Experimental robustness of Fourier ptychography phase retrieval algorithms Journal Article
In: Optics express, vol. 23, no. 26, pp. 33214–33240, 2015.
Links | BibTeX | Tags: algorithms, FPM, high-resolution, high-throughput, LED array, phase imaging
@article{yeh2015experimental,
title = {Experimental robustness of Fourier ptychography phase retrieval algorithms},
author = { Li-Hao Yeh and Jonathan Dong and Jingshan Zhong and Lei Tian and Michael Chen and Gongguo Tang and Mahdi Soltanolkotabi and Laura Waller},
url = {https://doi.org/10.1364/OE.23.033214},
doi = {10.1364/OE.23.033214},
year = {2015},
date = {2015-12-16},
journal = {Optics express},
volume = {23},
number = {26},
pages = {33214--33240},
publisher = {Optical Society of America},
keywords = {algorithms, FPM, high-resolution, high-throughput, LED array, phase imaging},
pubstate = {published},
tppubtype = {article}
}
Lei Tian; Ziji Liu; Li-Hao Yeh; Michael Chen; Jingshan Zhong; Laura Waller
Computational illumination for high-speed in vitro Fourier ptychographic microscopy Journal Article
In: Optica, vol. 2, no. 10, pp. 904–911, 2015.
Links | BibTeX | Tags: FPM, high-resolution, high-throughput, in vitro imaging, LED array, phase imaging
@article{tian2015computational,
title = {Computational illumination for high-speed in vitro Fourier ptychographic microscopy},
author = { Lei Tian and Ziji Liu and Li-Hao Yeh and Michael Chen and Jingshan Zhong and Laura Waller},
url = {https://doi.org/10.1364/OPTICA.2.000904},
doi = {10.1364/OPTICA.2.000904},
year = {2015},
date = {2015-10-14},
journal = {Optica},
volume = {2},
number = {10},
pages = {904--911},
publisher = {Optical Society of America},
keywords = {FPM, high-resolution, high-throughput, in vitro imaging, LED array, phase imaging},
pubstate = {published},
tppubtype = {article}
}
Lei Tian; Xiao Li; Kannan Ramchandran; Laura Waller
Multiplexed coded illumination for Fourier Ptychography with an LED array microscope Journal Article
In: Biomedical optics express, vol. 5, no. 7, pp. 2376–2389, 2014.
Links | BibTeX | Tags: algorithms, experimental design, FPM, high-resolution, high-throughput, LED array, multiplexed illumination
@article{tian2014multiplexed,
title = {Multiplexed coded illumination for Fourier Ptychography with an LED array microscope},
author = { Lei Tian and Xiao Li and Kannan Ramchandran and Laura Waller},
url = {https://doi.org/10.1364/BOE.5.002376},
doi = {10.1364/BOE.5.002376},
year = {2014},
date = {2014-06-19},
journal = {Biomedical optics express},
volume = {5},
number = {7},
pages = {2376--2389},
publisher = {Optical Society of America},
keywords = {algorithms, experimental design, FPM, high-resolution, high-throughput, LED array, multiplexed illumination},
pubstate = {published},
tppubtype = {article}
}