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2008 MRS Spring Meeting

作者： Li, Cheng King, Karen B. Pruitt, Lisa A. UC Berkeley and UCSF Joint Graduate Group in Bioengineering University of California Berkeley 2121 Etcheverry Hall Berkeley CA 94720 United States Department of Orthopaedics - Bioengineering University of Colorado at Denver and Health Sciences Center Mailstop 8343 12800 E. 19th Ave. Aurora CO 80045 United States University of California Berkeley 5134 Etcheverry Hall Mailstop 1740 Berkeley CA 94720-1740 United States

ISBN: (纸本)9781605608525

关键词： Cartilage

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Appendicular DXA BMC and Lean Mass Strongly Associated to Hip Fracture Risk

Appendicular DXA BMC and Lean Mass Strongly Associated to Hi...

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第六届国际骨质疏松及骨矿盐疾病学术会议

作者： John A Shepherd Serghei Malkov Kathleen Peters Jane Cauley Steve Cummings Tamara Harris Rachel Murphy Suzanne Satterfield Marjolien Visser Joseph Wilson Joseph Zmuda Peggy Cawthon Department of Radiology & Biomedical Imaging University of California San FranciscoUSA UC Berkeley-UCSF Graduate Program in Bioengineering California Pacific Medical Center Department of Epidemiology Graduate School of Public HealthUniversity of PittsburghPittsburghPennsylvaniaUSA UC Berkeley-UCSF Graduate Program in Bioengineering San FranciscoCA USA

Objective We aimto determine the utility of quantifying DXA-derived surrogates of CT measures including thigh cross-sectional muscle area(CSA) and muscle attenuation. Methods We used a retrospective case-cohort study design using data from the HealthAging and Body Composition(HealthABC) *** were 111 participants that had a hip fracture during the 8.7-year study period.A cohortof 212 non-fracture participants wasrandomly selected

关键词： DXA Appendicular DXA BMC and Lean Mass Strongly Associated to Hip Fracture Risk BMC

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Zone-Specific Changes in Micromechanical, Biochemical, and Structural Properties in Articular Cartilage from a Rabbit joint Flexion Model

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MRS Online Proceedings Library 2008年第1期1097卷 1-7页

作者： Cheng Li Karen B. King Lisa A. Pruitt UC Berkeley & UCSF Joint Graduate Group in Bioengineering University of California Berkeley USA Department of Orthopaedics - Bioengineering University of Colorado at Denver and Health Sciences Center Mailstop Aurora USA Mechanical Engineering University of California Berkeley 5134 Etcheverry Hall Mailstop 1740 Berkeley USA

Metacarpophalangeal (MCP) joint proximal bone-cartilage specimens from the fourth digit were collected from repetitively flexed and non-flexed (control) paws of four New Zealand White rabbits. The specimens were cryo-fractured to reveal a sagittal cut containing the cartilage zones of different collagen microstructure. Nanoindentation, Fourier Transform infrared microspectroscopic imaging (FTIRMI), and histology were performed on a region of interest (ROI) ∼400 microns wide and through the thickness of the cartilage with two goals in mind: (1) to examine the effect of collagen network structure (random in the mid zone versus organized in the deep zone) on the biomechanical and biochemical properties of cartilage; and (2) to understand the changes in these properties due to physical forces. We found that zone microstructure significantly affected the measurement of the local relaxed modulus measured by nanoindentation. The deep zone had a higher modulus than the mid zone (Wilcoxon paired test, p<0.05). We also found that flexion significantly decreased the proteoglycan content in both the mid and deep zones (Wilcoxon paired test, p<0.05), suggesting indirect repetitive loading in the rabbit paw can be damaging to the joint via down regulating proteoglycan synthesis in the mid and deep zone cartilage. This is the first study to simultaneously report the local zone-specific mechanical and biochemical properties in the rabbit joint flexion model.

关键词： tissue elastic properties structural

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Spectral DiffuserScope - Computational Snapshot Hyperspectral Imager for Microscopy

Spectral DiffuserScope - Computational Snapshot Hyperspectra...

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2023 Computational Optical Sensing and Imaging, COSI 2023 in Optica Imaging Congress - Part of Imaging and Applied Optics Congress 2023

作者： Aggarwal, Neerja Markley, Eric Raniwala, Yashovardhan Houck, William D. Lee, Kyung Chul Bae, Junghyun Baek, Nakkyu Park, Wook Lee, Seung Ah 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 VIAVI Solutions Inc Santa Rosa United States School of Electrical and Electronic Engineering Yonsei University Seoul Korea Republic of

We introduce a computational snapshot hyperspectral imager for benchtop microscopy. The compact device uses a diffuser and spectral filter array to multiplex spatio-spectral information into a 2D measurement, then rec... 详细信息

ISBN: (纸本)9781957171289

关键词： Blue light emitting diodes Diffusers Fluorescence microscopy Image sensors Spatial resolution Ultraviolet light emitting diodes

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Multi-institutional atlas of brain metastases informs spatial modeling for precision imaging and personalized therapy

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Nature Communications 2025年第1期16卷 1-15页

作者： Barrios, Jorge Porter, Evan Capaldi, Dante P. I. Upadhaya, Taman Chen, William C. Perks, Julian R. Apte, Aditya Aristophanous, Michalis LoCastro, Eve Hsu, Dylan Stone, Payton H. Villanueva-Meyer, Javier E. Valdes, Gilmer Jiang, Fei Maddalena, Michael Ballangrud, Ase Prezelski, Kayla Lin, Hui Sun, Jinger Y. Aldin, Muhtada A. K. Chau, Oi Wai Ziemer, Benjamin Seaberg, Maasa Sneed, Penny K. Nakamura, Jean L. Boreta, Lauren C. Fogh, Shannon E. Raleigh, David R. Chew, Jessica Vasudevan, Harish Cha, Soonmee Hess, Christopher Fragoso, Ruben Shultz, David B. Pike, Luke Hervey-Jumper, Shawn L. Tsang, Derek S. Theodosopoulos, Philip Cooke, Daniel Benedict, Stanley H. Sheng, Ke Seuntjens, Jan Coolens, Catherine Deasy, Joe Braunstein, Steve Morin, Olivier Department of Radiation Oncology University of California San Francisco San Francisco CA United States Department of Radiation Oncology University of California Davis Health Sacramento CA United States Department of Radiation Oncology Memorial Sloan Kettering New York NY United States Department of Medical Physics Memorial Sloan Kettering New York NY United States Department of Radiology and Biomedical Imaging University of California San Francisco San Francisco CA United States Department of Neurological Surgery University of California San Francisco San Francisco CA United States Department of Epidemiology and Biostatistics University of California San Francisco San Francisco CA United States Moffit Cancer Center Tampa FL United States Radiation Medicine Program Princess Margaret Cancer Centre University Health Network Toronto ON Canada Department of Medical Biophysics University of Toronto Toronto ON Canada UCSF/UC Berkeley Graduate Program in Bioengineering San Francisco CA United States Department of Pathology University of California San Francisco San Francisco CA United States

Brain metastases are a frequent and debilitating manifestation of advanced cancer. Here, we collect and analyze neuroimaging of 3,065 cancer patients with 13,067 brain metastases, representing an extensive collection for research. We find that metastases predominantly localize to high perfusion areas near the grey-white matter junction, but also identify notable differences depending on the primary cancer histology as well as brain regions which do not conform to this relationship. Lung and breast cancers, in contrast to melanoma, frequently metastasize to the cerebellum, hinting at biological pathways of spread. Additionally, the deep brain structures are relatively spared from metastasis, regardless of primary cancer type. Leveraging this data, we propose a probabilistic brain metastasis risk model to enhance the therapeutic ratio of whole-brain radiotherapy by targeting high risk areas while preserving cortical and subcortical brain regions of functional significance and low metastasis risk, potentially reducing the cognitive side effects of therapy. © The Author(s) 2025.

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Enabling closed-loop neurostimulation research with downloadable firmware upgrades

Enabling closed-loop neurostimulation research with download...

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IEEE Biomedical Circuits and Systems (BIOCAS)

作者： Preeya Khanna Scott Stanslaski Yizi Xiao Terry Ahrens Duane Bourget Nicole Swann Philip Starr Jose M. Carmena Timothy Denison UC Berkeley/UCSF Joint Graduate Group in Bioengineering Neuromodulation Technology PLC Department of Neurological Surgery University of California San Francisco University of California Berkeley Berkeley CA US

We present a simulated case study using investigational, downloadable firmware updates to configure an existing implanted deep brain stimulator. With the upgrade, closed-loop algorithm parameters affecting stimulation state classification and stimulation timing can be embedded within the device to allow for chronic investigation of closed-loop concepts both flexibly and incrementally. The system can be outfitted with either cortical sensing electrodes or depth electrodes to explore a variety of closed-loop paradigms. The prototype case study presented here uses motor intention signals to titrate stimulation, a relevant use case for treatment of movement disorders, though the technology is extensible to other neurological disorders. To highlight the translational capabilities of this tool, the key technology considerations of battery power usage, chronic sensitivity and stability of biomarkers, and parameter tuning are discussed using representative testing and data sources.

关键词： Algorithm design and analysis Electrodes Microprogramming Satellite broadcasting Classification algorithms Sensors Computers

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Protein Dot Array Patterning for Study of Cell Adhesion and Migration

Protein Dot Array Patterning for Study of Cell Adhesion and ...

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2007年纳米光电子学国际学术会议

作者： Junyu Mai Song Li Xiang Zhang NSF Nanoscale Science and Engineering Center UCSF/UC Berkeley Joint Graduate Group in Bioengineerin Department of Bioengineering UC Berkeley Berkeley CA94720 USA NSF Nanoscale Science and Engineering Center UC Berkeley Berkeley CA94720 USA

Fibronectin is patterned on silicone rubber surfaces in arrays of 2μm diameter dots using contact removal method. Cells are cultured on the patterned surface and their migration and the structure of actin cytoskeleto... 详细信息

关键词： Adhesives Silicon Protein engineering Biomedical engineering Fluorescence Nanobioscience Cells (biology) Fibroblasts Tissue engineering Rubber

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Motion artifacts on 240Hz OLED stereoscopic 3D displays

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Digest of Technical Papers - SID International Symposium 2014年第1期45卷 797-800页

作者： Johnson, Paul Kim, Joohwan Hoffman, David M. Vargas, Andres Banks, Martin S. UC Berkeley UCSF Graduate Program in Bioengineering United States University of California Berkeley Vision Science Program 360 Minor Hall Berkeley CA United States Samsung Display Americas Lab San Jose CA United States

We examined the visibility of motion artifacts - judder, motion blur, and edge banding - on a Samsung 240Hz stereoscopic 3D (S3D) OLED display. We determined the relative contributions of the frame rate of the content, update rate of the panel, duty cycle, and flash number. We compared the visibility of artifacts on the Samsung display with those on a 60Hz S3D LCD. Short duty cycles and low flash numbers reduce the visibility of motion artifacts. © 2014 Society for Information Display.

关键词： Stereo image processing

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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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CELL-E 2: translating proteins to pictures and back with a bidirectional text-to-image transformer 23

CELL-E 2: translating proteins to pictures and back with a b...

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Proceedings of the 37th International Conference on Neural Information Processing Systems

作者： Emaad Khwaja Yun S. Songt Aaron Agarunov Bo Huang UC Berkeley - UCSF Joint Bioengineering Graduate Program and Computer Science Division UC Berkeley CA Department of Statistics UC Berkeley CA and Computer Science Division UC Berkeley CA Department of Pathology Memorial Sloan Kettering Cancer Center Department of Pharmaceutical Chemistry UCSF San Francisco CA and Department of Biochemistry and Biophysics UCSF San Francisco CA and Chan Zuckerberg Biohub - San Francisco San Francisco CA

We present CELL-E 2, a novel bidirectional transformer that can generate images depicting protein subcellular localization from the amino acid sequences (and vice versa). Protein localization is a challenging problem that requires integrating sequence and image information, which most existing methods ignore. CELL-E 2 extends the work of CELL-E, not only capturing the spatial complexity of protein localization and produce probability estimates of localization atop a nucleus image, but also being able to generate sequences from images, enabling de novo protein design. We train and finetune CELL-E 2 on two large-scale datasets of human proteins. We also demonstrate how to use CELL-E 2 to create hundreds of novel nuclear localization signals (NLS). Results and interactive demos are featured at https://***/CELL-E_2/.

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