Journal papers
Michael Chen; David Ren; Hsiou-Yuan Liu; Shwetadwip Chowdhury; Laura Waller
Multi-layer Born multiple-scattering model for 3D phase microscopy Journal Article
In: Optica, vol. 7, no. 5, pp. 394–403, 2020.
Abstract | Links | BibTeX | Tags: 3D imaging, multiple-scattering, optical models, phase imaging
@article{Chen:20,
title = {Multi-layer Born multiple-scattering model for 3D phase microscopy},
author = {Michael Chen and David Ren and Hsiou-Yuan Liu and Shwetadwip Chowdhury and Laura Waller},
url = {http://www.osapublishing.org/optica/abstract.cfm?URI=optica-7-5-394},
doi = {10.1364/OPTICA.383030},
year = {2020},
date = {2020-05-01},
journal = {Optica},
volume = {7},
number = {5},
pages = {394--403},
publisher = {OSA},
abstract = {We propose an accurate and computationally efficient 3D scattering model, multi-layer Born (MLB), and use it to recover the 3D refractive index (RI) of thick biological samples. For inverse problems recovering the complex field of thick samples, weak scattering models (e.g., first Born) may fail or underestimate the RI, especially with a large index contrast. Multi-slice (MS) beam propagation methods model multiple scattering to provide more realistic reconstructions; however, MS does not properly account for highly oblique scattering, nor does it model backward scattering. Our proposed MLB model uses a first Born model at each of many slices, accurately capturing the oblique scattering effects and estimating the backward scattering process. When used in conjunction with an inverse solver, the model provides more accurate RI reconstructions for high-resolution phase tomography. Importantly, MLB retains a reasonable computation time that is critical for practical implementation with iterative inverse algorithms.},
keywords = {3D imaging, multiple-scattering, optical models, phase imaging},
pubstate = {published},
tppubtype = {article}
}
David Ren; Colin Ophus; Michael Chen; Laura Waller
A multiple scattering algorithm for three dimensional phase contrast atomic electron tomography Journal Article
In: Ultramicroscopy, vol. 208, pp. 112860, 2020.
Links | BibTeX | Tags: 3D imaging, algorithms, multiple-scattering, phase imaging, TEM
@article{ren2020multiple,
title = {A multiple scattering algorithm for three dimensional phase contrast atomic electron tomography},
author = { David Ren and Colin Ophus and Michael Chen and Laura Waller},
url = {https://www.sciencedirect.com/science/article/pii/S030439911930052X},
year = {2020},
date = {2020-01-01},
journal = {Ultramicroscopy},
volume = {208},
pages = {112860},
publisher = {North-Holland},
keywords = {3D imaging, algorithms, multiple-scattering, phase imaging, TEM},
pubstate = {published},
tppubtype = {article}
}
Shwetadwip Chowdhury; Michael Chen; Regina Eckert; David Ren; Fan Wu; Nicole A Repina; Laura Waller
High-resolution 3D refractive index microscopy of multiple-scattering samples from intensity images Journal Article
In: Optica, vol. 6, no. 9, pp. 1211–1219, 2019.
Links | BibTeX | Tags: 3D imaging, multiple-scattering, phase imaging
@article{chowdhury2019high,
title = {High-resolution 3D refractive index microscopy of multiple-scattering samples from intensity images},
author = { Shwetadwip Chowdhury and Michael Chen and Regina Eckert and David Ren and Fan Wu and Nicole A Repina and Laura Waller},
url = {https://doi.org/10.1364/OPTICA.6.001211},
doi = {10.1364/OPTICA.6.001211},
year = {2019},
date = {2019-09-16},
journal = {Optica},
volume = {6},
number = {9},
pages = {1211--1219},
publisher = {Optical Society of America},
keywords = {3D imaging, multiple-scattering, phase imaging},
pubstate = {published},
tppubtype = {article}
}
Colin Ophus; David Ren; Jihan Zhou; Hannah Devyldere; Michael Chen; Philipp M Pelz; Peter Ercius; Jianwei Miao; Mary C Scott; Laura Waller
3D Imaging Using HAADF-STEM and HRTEM Atomic Electron Tomography Journal Article
In: Microscopy and Microanalysis, vol. 25, no. S2, pp. 394–395, 2019.
Links | BibTeX | Tags: 3D imaging, multiple-scattering, phase imaging, TEM
@article{ophus20193d,
title = {3D Imaging Using HAADF-STEM and HRTEM Atomic Electron Tomography},
author = { Colin Ophus and David Ren and Jihan Zhou and Hannah Devyldere and Michael Chen and Philipp M Pelz and Peter Ercius and Jianwei Miao and Mary C Scott and Laura Waller},
url = {https://doi.org/10.1017/S1431927619002708},
doi = {10.1017/S1431927619002708},
year = {2019},
date = {2019-08-05},
journal = {Microscopy and Microanalysis},
volume = {25},
number = {S2},
pages = {394--395},
publisher = {Cambridge University Press},
keywords = {3D imaging, multiple-scattering, phase imaging, TEM},
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}
}
Hsiou-Yuan Liu; Dehong Liu; Hassan Mansour; Petros T Boufounos; Laura Waller; Ulugbek S Kamilov
SEAGLE: Sparsity-driven image reconstruction under multiple scattering Journal Article
In: IEEE Transactions on Computational Imaging, vol. 4, no. 1, pp. 73–86, 2017.
Links | BibTeX | Tags: algorithms, multiple-scattering, optical models
@article{liu2017seagle,
title = {SEAGLE: Sparsity-driven image reconstruction under multiple scattering},
author = { Hsiou-Yuan Liu and Dehong Liu and Hassan Mansour and Petros T Boufounos and Laura Waller and Ulugbek S Kamilov},
url = {https://doi.org/10.1109/TCI.2017.2764461},
doi = {10.1109/TCI.2017.2764461},
year = {2017},
date = {2017-10-19},
journal = {IEEE Transactions on Computational Imaging},
volume = {4},
number = {1},
pages = {73--86},
publisher = {IEEE},
keywords = {algorithms, multiple-scattering, optical models},
pubstate = {published},
tppubtype = {article}
}
Hsiou-Yuan Liu; Eric Jonas; Lei Tian; Jingshan Zhong; Benjamin Recht; Laura Waller
3D imaging in volumetric scattering media using phase-space measurements Journal Article
In: Optics express, vol. 23, no. 11, pp. 14461–14471, 2015.
Links | BibTeX | Tags: 3D imaging, multiple-scattering, phase space
@article{liu20153d,
title = {3D imaging in volumetric scattering media using phase-space measurements},
author = { Hsiou-Yuan Liu and Eric Jonas and Lei Tian and Jingshan Zhong and Benjamin Recht and Laura Waller},
url = {https://doi.org/10.1364/OE.23.014461},
doi = {10.1364/OE.23.014461},
year = {2015},
date = {2015-05-22},
journal = {Optics express},
volume = {23},
number = {11},
pages = {14461--14471},
publisher = {Optical Society of America},
keywords = {3D imaging, multiple-scattering, phase space},
pubstate = {published},
tppubtype = {article}
}