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Computational Optical Sensing and Imaging, COSI 2020 - Part of Imaging and Applied Optics Congress 2020

作者： Monakhova, Kristina Yanny, Kyrollos Waller, Laura Department of Electrical Engineering and Computer Sciences University of California Berkeley United States UCB/UCSF Joint Graduate Program in Bioengineering University of California Berkeley United States

We introduce a snapshot hyperspectral imager that uses a random phase mask, repeated spectral filter array, and compressive recovery to achieve high spatial and spectral resolution in a small form factor. © 2020 ... 详细信息

ISBN: (纸本)9781557528209

关键词： Hyperspectral imaging

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Physics-based learned design for Fourier DiffuserScope

Physics-based learned design for Fourier DiffuserScope

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Computational Optical Sensing and Imaging, COSI 2021 - Part of OSA Imaging and Applied Optics Congress 2021

作者： Markley, Eric Liu, Fanglin Linda Kellman, Michael Antipa, Nick Waller, Laura UCB/UCSF Joint Graduate Program in Bioengineering University of California Berkeley United States Department of Electrical Engineering and Computer Sciences University of California Berkeley United States Department of Pharmaceutical Chemistry University of California San Francisco United States Department of Electrical and Computer Engineering University of California San Diego United States

We couple a differentiable forward model of diffuser-based single-shot 3D microscopy (Fourier DiffuserScope) with an invertible and differentiable reconstruction algorithm to jointly optimize the imaging system and th... 详细信息

ISBN: (纸本)9781557528209

关键词： Imaging systems

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Spatially-varying microscope calibration from unstructured sparse inputs

Spatially-varying microscope calibration from unstructured s...

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Computational Optical Sensing and Imaging, COSI 2020 - Part of Imaging and Applied Optics Congress 2020

作者： Kuo, Grace Monakhova, Kristina Yanny, Kyrollos Ng, Ren Waller, Laura Department of Electrical Engineering and Computer Sciences University of California Berkeley BerkeleyCA94720 United States UCB/UCSF Joint Graduate Program in Bioengineering University of California Berkeley BerkeleyCA94720 United States

We propose a method based on blind deconvolution to calibrate the spatially-varying point spread functions of a coded-aperture microscope system. From easy-to-acquire measurements of unstructured fluorescent beads, we... 详细信息

ISBN: (纸本)9781557528209

关键词： Optical transfer function

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Compressed sensing 3D fluorescence microscopy using optimized phase mask

Compressed sensing 3D fluorescence microscopy using optimize...

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Computational Optical Sensing and Imaging, COSI 2020 - Part of Imaging and Applied Optics Congress 2020

作者： Yanny, Kyrollos Antipa, Nick Liberti, William Dehaeck, Sam Monakhova, Kristina Liu, Fanglin Linda Shen, Konlin Ng, Ren Waller, Laura UCB/UCSF Joint Graduate Program in Bioengineering University of California Berkeley United States Department of Electrical Engineering and Computer Sciences University of California Berkeley United States Brussels1050 Belgium

We demonstrate a single-shot miniature 3D computational microscope with an optimized phase encoder. Our method uses sparsity-based reconstruction to achieve a 2.76µm lateral and 15µm axial resolution across ... 详细信息

ISBN: (纸本)9781557528209

关键词： Fluorescence microscopy

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Physics-driven Deep Learning for PET/MRI

arXiv

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arXiv 2022年

作者： Rajagopal, Abhejit Leynes, Andrew P. Dwork, Nicholas Scholey, Jessica E. Hope, Thomas A. Larson, Peder E.Z. Department of Radiology and Biomedical Imaging University of California San Francisco94158 United States Uc Berkeley-UCSF Joint Graduate Program in Bioengineering University of California San Francisco United States University of California BerkeleyCA United States Department of Radiation Oncology University of California San Francisco94158 United States Departments of Pediatrics and Radiology University of Colorado Anschutz 80045 United States

In this paper, we review physics- and data-driven reconstruction techniques for simultaneous positron emission tomography (PET) / magnetic resonance imaging (MRI) systems, which have significant advantages for clinical imaging of cancer, neurological disorders, and heart disease. These reconstruction approaches utilize priors, either structural or statistical, together with a physics-based description of the PET system response. However, due to the nested representation of the forward problem, direct PET/MRI reconstruction is a nonlinear problem. We elucidate how a multi-faceted approach accommodates hybrid data- and physics-driven machine learning for reconstruction of 3D PET/MRI, summarizing important deep learning developments made in the last 5 years to address attenuation correction, scattering, low photon counts, and data consistency. We also describe how applications of these multi-modality approaches extend beyond PET/MRI to improving accuracy in radiation therapy planning. We conclude by discussing opportunities for extending the current state-of-the-art following the latest trends in physics- and deep learning-based computational imaging and next-generation detector hardware. Copyright © 2022, The Authors. All rights reserved.

关键词： Magnetic resonance imaging

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Hybrid dedicated and distributed coding in PMd/M1 provides separation and interaction of bilateral arm signals

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PLoS Computational Biology 2021年第11期17卷 e1009615-e1009615页

作者： Dixon, Tanner C. Merrick, Christina M. Wallis, Joni D. Ivry, Richard B. Carmena, Jose M. UC Berkeley-UCSF Graduate Program in Bioengineering University of California-Berkeley BerkeleyCA United States Department of Psychology University of California-Berkeley BerkeleyCA United States Helen Wills Neuroscience Institute University of California-Berkeley BerkeleyCA United States Department of Electrical Engineering and Computer Sciences University of California-Berkeley BerkeleyCA United States

Pronounced activity is observed in both hemispheres of the motor cortex during preparation and execution of unimanual movements. The organizational principles of bi-hemispheric signals and the functions they serve throughout motor planning remain unclear. Using an instructed-delay reaching task in monkeys, we identified two components in population responses spanning PMd and M1. A "dedicated"component, which segregated activity at the level of individual units, emerged in PMd during preparation. It was most prominent following movement when M1 became strongly engaged, and principally involved the contralateral hemisphere. In contrast to recent reports, these dedicated signals solely accounted for divergence of arm-specific neural subspaces. The other "distributed"component mixed signals for each arm within units, and the subspace containing it did not discriminate between arms at any stage. The statistics of the population response suggest two functional aspects of the cortical network: One that spans both hemispheres for supporting preparatory and ongoing processes, and another that is predominantly housed in the contralateral hemisphere and specifies unilateral output. © 2021 Dixon et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

关键词： Population statistics

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Node-pore sensing device to detect tumor-derived extracellular vesicles 23

Node-pore sensing device to detect tumor-derived extracellul...

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23rd International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2019

作者： Carey, Thomas R. Hall, Jennifer Sohn, Lydia L. UC Berkeley-UCSF Graduate Program in Bioengineering United States UC Berkeley Molecular and Cell Biology United States UC Berkeley Mechanical Engineering United States

ISBN: (纸本)9781733419000

We present the theory, design, and proof-of-concept demonstration of a tumor-derived extracellular vesicle (EV) detection platform. Our platform detects EVs displaying specific surface antigens by electronically measuring the effective size increase of antibody-coated colloids when EVs specifically bind to them. We show that we can distinguish EVs derived from a lung cancer cell line (A549) and a non-malignant bronchial epithelial cell line (BEAS-2B) based on the CA12 surface marker. © 2019 CBMS-0001.

关键词： Tumors

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Clinical anthropometrics and body composition from 3D whole-body surface scans (vol 70, pg 1265, 2016)

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EUROPEAN JOURNAL OF CLINICAL NUTRITION 2021年第3期75卷 574-574页

作者： Ng, B. K. Hinton, B. J. Fan, B. Kanaya, A. M. Shepherd, J. A. Department of Radiology and Biomedical Imaging University of California San Francisco San Francisco USA The UC Berkeley—UCSF Graduate Program in Bioengineering San Francisco USA Department of Medicine University of California San Francisco San Francisco USA

A Correction to this paper has been published: https://***/10.1038/s41430-020-00808-y

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Linking physical phenotype to drug resistance: Single-cell mechanical measurements of acute promyelocytic Leukemia 23

Linking physical phenotype to drug resistance: Single-cell m...

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23rd International Conference on Miniaturized Systems for Chemistry and Life Sciences, MicroTAS 2019

作者： Li, Brian L. Maslan, Annie M. Streets, Aaron M. Sohn, Lydia L. UC Berkeley UCSF Graduate Program in Bioengineering Berkeley and San Francisco United States UC Berkeley Center for Computational Biology Berkeley United States UC Berkeley Biophysics Graduate Group Berkeley United States UC Berkeley Department of Mechanical Engineering Berkeley United States

ISBN: (纸本)9781733419000

Mechanical testing of cancer cells has established that certain pathophysiological phenotypes are strongly associated with abnormal cell mechanics. We used a microfluidic platform previously developed in our laboratory to perform rapid mechanical phenotyping of acute promyelocytic leukemia (APL) cells. These measurements revealed that drug-resistant APL cells exhibit more solid-like viscoelastic behavior compared to drug-responsive cells and that this mechanical difference could be due to chromatin condensation. Our work demonstrates that single-cell mechanical phenotyping could serve to predict drug-resistance in APL. © 2019 CBMS-0001.

关键词： Mechanical testing

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A compact planar triple-nuclear coil for small animal 1H, 13C, and 31P Metabolic MR Imaging at 14.1 T

arXiv

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arXiv 2021年

作者： Leynes, A.P. Chen, Y. Sukumar, S. Xu, D. Zhang, X. Department of Radiology and Biomedical Imaging University of California San Francisco Byers Hall 102D 1700 4th Street San FranciscoCA94158 United States UC Berkeley and UCSF Joint Graduate Group in Bioengineering San Francisco BerkeleyCA United States

Multi-nuclear radio-frequency (RF) coils at ultrahigh field strengths are challenging to develop due to the high operating frequency, increased electromagnetic interaction among the coil elements, and increased electromagnetic interaction between the coils and the subject. In this work, a triple-nuclear surface coil for 1H, 13C, and 31P for small animal metabolic imaging at 14.1 T is built by nesting three surface coil geometries: a lumped-element L-C loop coil, a butterfly coil, and a microstrip transmission line (MTL) resonator. The loop coil, butterfly coil, and MTL are tuned to 31P, 13C, and 1H, respectively. The successful bench tests and phantom imaging with this novel triple-nuclear coil demonstrates the feasibility of the design for triple-nuclear MR imaging and spectroscopy studies at the ultrahigh field of 14.1 T. In particular, the microstrip transmission line resonator demonstrates excellent coil performance for proton imaging at 600 MHz, where conventional lumped-element design is limited. © 2021, CC BY.

关键词： Resonators

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