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arXiv 2025年

作者： Almagro-Pérez, Cristina Song, Andrew H. Weishaupt, Luca Kim, Ahrong Jaume, Guillaume Williamson, Drew F.K. Hemker, Konstantin Lu, Ming Y. Singh, Kritika Chen, Bowen Le, Long Phi Baras, Alexander S. Jiang, Sizun Bashashati, Ali Liu, Jonathan T.C. Mahmood, Faisal Department of Pathology Mass General Brigham Harvard Medical School BostonMA United States Cancer Program Broad Institute of Harvard and MIT CambridgeMA United States Data Science Program Dana-Farber Cancer Institute BostonMA United States Harvard-MIT Division of Health Sciences and Technology Massachusetts Institute of Technology CambridgeMA United States Department of Pathology Pusan National University Busan Korea Republic of Department of Pathology and Laboratory Medicine Emory University School of Medicine AtlantaGA United States Department of Computer Science & Technology University of Cambridge Cambridge United Kingdom Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology CambridgeMA United States Rutgers Robert Wood Johnson Medical School New BrunswickNJ United States Department of Pathology Johns Hopkins Hospital BaltimoreMD United States Department of Biomedical Engineering Johns Hopkins Hospital BaltimoreMD United States Broad Institute of Harvard and MIT CambridgeMA United States Center for Virology and Vaccine Research Beth Israel Deaconess Medical Center Harvard Medical School BostonMA United States Department of Pathology Dana Farber Cancer Institute BostonMA United States Department of Pathology and Laboratory Medicine University of British Columbia VancouverBC Canada School of Biomedical Engineering University of British Columbia VancouverBC Canada Department of Mechanical Engineering Bioengineering Laboratory Medicine & Pathology University of Washington SeattleWA United States Harvard Data Science Initiative Harvard University CambridgeMA United States

A comprehensive three-dimensional (3D) map of tissue architecture and gene expression is crucial for illuminating the complexity and heterogeneity of tissues across diverse biomedical applications1. However, most spatial transcriptomics (ST) approaches remain limited to two-dimensional (2D) sections of tissue2–4. Although current 3D ST methods hold promise, they typically require extensive tissue sectioning, are complex, are not compatible with non-destructive 3D tissue imaging technologies, and often lack scalability5–8. Here, we present VOlumetrically Resolved Transcriptomics EXpression (VORTEX), an AI framework that leverages 3D tissue morphology and minimal 2D ST to predict volumetric 3D ST. By pretraining on diverse 3D morphology–transcriptomic pairs from heterogeneous tissue samples and then fine-tuning on minimal 2D ST data from a specific volume of interest, VORTEX learns both generic tissue-related and sample-specific morphological correlates of gene expression. This approach enables dense, high-throughput, and fast 3D ST, scaling seamlessly to large tissue volumes far beyond the reach of existing 3D ST techniques. By offering a cost-effective and minimally destructive route to obtaining volumetric molecular insights, we anticipate that VORTEX will accelerate biomarker discovery and our understanding of morphomolecular associations and cell states in complex tissues. Interactive 3D ST volumes can be viewed at https://***/. © 2025, CC BY-NC-ND.

关键词： Vortex flow

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Label-free multimodal nonlinear optical imaging of needle biopsies: Towards real-time monitoring of living biopsies

Label-free multimodal nonlinear optical imaging of needle bi...

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Bio-Optics: Design and Application, BODA 2021 - Part of Biophotonics Congress: Optics in the Life sciences 2021

作者： Yang, Lingxiao Park, Jaena Renteria, Carlos Chaney, Eric J. Marjanovic, Marina Philips, Heidi Boppart, Stephen A. Department of Electrical and Computer Engineering University of Illinois at Urbana-Champaign UrbanaIL61801 United States Beckman Institute for Advanced Science and Technology University of Illinois at Urbana-Champaign UrbanaIL61801 United States Department of Bioengineering University of Illinois at Urbana-Champaign UrbanaIL61801 United States Illinois Veterinary Teaching Hospital University of Illinois at Urbana-Champaign UrbanaIL61801 United States

A portable label-free multimodal nonlinear optical imaging platform has been developed and demonstrated for intraoperative imaging of needle biopsies in canine cancer surgeries, with investigations on the integrity of... 详细信息

ISBN: (纸本)9781557528209

关键词： Biopsy

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CNN based demosaicing for labeled fluorescence cancer intraoperative imaging with visible-NIR sensors 23

CNN based demosaicing for labeled fluorescence cancer intrao...

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Advanced Biomedical and Clinical Diagnostic and Surgical Guidance Systems XXIII 2025

作者： Jin, Yifei Kondov, Borislav Kondov, Goran Singhal, Sunil Nie, Shuming Gruev, Viktor Department of Electrical and Computer Engineering University of Illinois at Urbana-Champaign UrbanaIL61801 United States Department of Thoracic and Vascular Surgery Ss. Cyril and Methodius University of Skopje Macedonia Perelman School of Medicine Department of Thoracic Surgery University of Pennsylvania United States Department of Bioengineering University of Illinois at Urbana-Champaign UrbanaIL61801 United States Beckman Institute for Advanced Science and Technology University of Illinois at Urbana-Champaign UrbanaIL61801 United States Carle Illinois College of Medicine University of Illinois at Urbana-Champaign UrbanaIL61820 United States

ISBN: (纸本)9781510683600

Single-chip imaging devices with vertically stacked photodiodes and pixelated spectral filters enhance multi-dye imaging techniques for cancer surgeries. However, this advancement sacrifices spatial resolution. To address this issue, we have created a deep convolutional neural network designed to demosaic color and NIR channels, and its effectiveness has been confirmed through testing on both preclinical and clinical datasets. © 2025 SPIE.

关键词： Thermography (imaging)

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Broadband Coherent Wave Control Through Photonic Collisions at Time Interfaces

arXiv

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arXiv 2022年

作者： Galiffi, Emanuele Xu, Gengyu Yin, Shixiong Moussa, Hady Ra'di, Younes Alù, Andrea Photonics Initiative Advanced Science Research Center City University of New York 85 St. Nicholas Terrace New York10031 United States Department of Electrical Engineering City College City University of New York United States Physics Program Graduate Center City University of New York United States Department of Electrical Engineering and Computer Science Syracuse University SyracuseNY13244 United States

Coherent wave control exploits the interference among multiple waves impinging on a system to suppress or enhance outgoing signals based on their relative phase and amplitude. This process inherently requires the combination of non-Hermiticity, in order to enable energy exchanges among the waves, and spatial interfaces in order to tailor their scattering. Here we explore the temporal analogue of this phenomenon, based on time-interfaces that support instantaneous non-Hermitian scattering events for photons. Based on this mechanism, we demonstrate ultra-broadband temporal coherent wave control and the photonic analogue of mechanical collisions with phase-tunable elastic features. We apply them to erase, enhance and reshape arbitrary pulses by suitably tailoring the amplitude and phase of counterpropagating signals. Our findings provide a pathway to effectively sculpt broadband light with light without requiring spatial boundaries, within an ultrafast and low-energy platform. © 2022, CC BY.

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Deep Learning-based Virtual Immunohistochemical HER2 staining of Label-Free Breast Tissue

Deep Learning-based Virtual Immunohistochemical HER2 stainin...

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Conference on Lasers and Electro-Optics (CLEO)

作者： Bijie Bai Hongda Wang Yuzhu Li Kevin de Haan Francesco Colonnese Yujie Wan Jingyi Zuo Ngan B. Doan Xiaoran Zhang Yijie Zhang Jingxi Li Wenjie Dong Morgan Angus Darrow Elham Kamangar Han Sung Lee Yair Rivenson Aydogan Ozcan Electrical and Computer Engineering Department University of California Bioengineering Department University of California California NanoSystems Institute (CNSI) University of California Computer Science Department University of California Physics and Astronomy Department University of California Translational Pathology Core Laboratory Statistics Department University of California Los Angeles CA USA Department of Pathology and Laboratory Medicine University of California at Davis Sacramento CA USA Department of Surgery University of California Los Angeles CA USA

We present deep learning-based virtual immunohistochemical (IHC) HER2 staining of label-free breast tissue sections, matching the standard IHC HER2 staining performed by histotechnologists.

ISBN: (数字)9781957171050

ISBN: (纸本)9781665466660

We present deep learning-based virtual immunohistochemical (IHC) HER2 staining of label-free breast tissue sections, matching the standard IHC HER2 staining performed by histotechnologists.

关键词： Breast tissue Lasers and electrooptics Electrooptical waveguides Standards

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Nonvolatile Tuning of Bragg Structures Using Transparent Phase-Change Materials

arXiv

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arXiv 2023年

作者： Nobile, Nicholas A. Lian, Chuanyu Sun, Hongyi Huang, Yi-Siou Mills, Brian Popescu, Cosmin Constantin Callahan, Dennis Hu, Juejun Ríos Ocampo, Carlos A. Youngblood, Nathan Electrical & Computer Engineering Department The University of Pittsburgh PittsburghPA15213 United States Department of Materials Science & Engineering University of Maryland College ParkMD20742 United States Institute for Research in Electronics & Applied Physics University of Maryland College ParkMD20742 United States Department for Materials Science & Engineering Massachusetts Institute of Technology CambridgeMA02139 United States Draper Scholar Program The Charles Stark Draper Laboratory Inc CambridgeMA02139 United States The Charles Stark Draper Laboratory Inc CambridgeMA02139 United States

Bragg gratings offer high-performance filtering and routing of light on-chip through a periodic modulation of a waveguide’s effective refractive index. Here, we model and experimentally demonstrate the use of Sb2Se3, a nonvolatile and transparent phase-change material, to tune the resonance conditions in two devices which leverage periodic Bragg gratings—a stopband filter and Fabry-Perot cavity. Through simulations, we show that similar refractive indices between silicon and amorphous Sb2Se3 can be used to induce broadband transparency, while the crystalline state can enhance the index contrast in these Bragg devices. Our experimental results show the promise and limitations of this design approach and highlight specific fabrication challenges which need to be addressed in future implementations. © 2023, CC BY.

关键词： Refractive index

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The challenges of measuring spin Seebeck noise

arXiv

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arXiv 2023年

作者： Luo, Renjie Zhao, Xuanhan Legvold, Tanner J. Chen, Liyang Liu, Changjiang Hong, Deshun Bhattacharya, Anand Natelson, Douglas Department of Physics and Astronomy Rice University HoustonTX77005 United States Applied Physics Program Smalley-Curl Institute Rice University HoustonTX77005 United States Materials Science Division Argonne National Laboratory LemontIL60439 United States Department of Electrical and Computer Engineering Rice University HoustonTX77005 United States Department of Materials Science and NanoEngineering Rice University HoustonTX77005 United States

Just as electronic shot noise in driven conductors results from the granularity of charge and the statistical variation in the arrival times of charge carriers, there are predictions for fundamental noise in magnon currents due to angular momentum being carried by discrete excitations. The inverse spin Hall effect as a transduction mechanism to convert spin current into charge current raises the prospect of experimental investigations of such magnon shot noise. Spin Seebeck effect measurements have demonstrated the electrical detection of thermally driven magnon currents and have been suggested as an avenue for accessing spin current fluctuations. Using spin Seebeck structures made from yttrium iron garnet on gadolinium gallium garnet, we demonstrate the technical challenges inherent in such noise measurements. While there is a small increase in voltage noise in the inverse spin Hall detector at low temperatures associated with adding a magnetic field, the dependence on field orientation implies that this is not due to magnon shot noise. We describe theoretical predictions for the expected magnitude of magnon shot noise, highlighting ambiguities that exist. Further, we show that magnon shot noise detection through the standard inverse spin Hall approach is likely impossible due to geometric factors. Implications for future attempts to measure magnon shot noise are discussed. Copyright © 2023, The Authors. All rights reserved.

关键词： Shot noise

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Recent Advances in Triboelectric Nanogenerators: From Technological Progress to Commercial Applications

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ACS Nano 2023年第12期17卷 11087-11219页

作者： Choi, Dongwhi Lee, Younghoon Lin, Zong-Hong Cho, Sumin Kim, Miso Ao, Chi Kit Soh, Siowling Sohn, Changwan Jeong, Chang Kyu Lee, Jeongwan Lee, Minbaek Lee, Seungah Ryu, Jungho Parashar, Parag Cho, Yujang Ahn, Jaewan Kim, Il-Doo Jiang, Feng Lee, Pooi See Khandelwal, Gaurav Kim, Sang-Jae Kim, Hyun Soo Song, Hyun-Cheol Kim, Minje Nah, Junghyo Kim, Wook Menge, Habtamu Gebeyehu Park, Yong Tae Xu, Wei Hao, Jianhua Park, Hyosik Lee, Ju-Hyuck Lee, Dong-Min Kim, Sang-Woo Park, Ji Young Zhang, Haixia Zi, Yunlong Guo, Ru Cheng, Jia Yang, Ze Xie, Yannan Lee, Sangmin Chung, Jihoon Oh, Il-Kwon Kim, Ji-Seok Cheng, Tinghai Gao, Qi Cheng, Gang Gu, Guangqin Shim, Minseob Jung, Jeehoon Yun, Changwoo Zhang, Chi Liu, Guoxu Chen, Yufeng Kim, Suhan Chen, Xiangyu Hu, Jun Pu, Xiong Guo, Zi Hao Wang, Xudong Chen, Jun Xiao, Xiao Xie, Xing Jarin, Mourin Zhang, Hulin Lai, Ying-Chih He, Tianyiyi Kim, Hakjeong Park, Inkyu Ahn, Junseong Huynh, Nghia Dinh Yang, Ya Wang, Zhong Lin Baik, Jeong Min Choi, Dukhyun Kyung Hee University Gyeonggi Yongin17104 Korea Republic of Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology 77 Massachusetts Avenue CambridgeMA02139 United States Department of Mechanical Engineering Soft Robotics Research Center Seoul National University Seoul08826 Korea Republic of Department of Mechanical Engineering Gachon University Seongnam13120 Korea Republic of Department of Biomedical Engineering National Taiwan University Taipei10617 Taiwan Frontier Research Center on Fundamental and Applied Sciences of Matters National Tsing Hua University Hsinchu30013 Taiwan School of Advanced Materials Science & Engineering Sungkyunkwan University Suwon16419 Korea Republic of Sungkyunkwan University 2066 Seobu-ro Gyeonggi Suwon16419 Korea Republic of Department of Chemical and Biomolecular Engineering National University of Singapore 4 Engineering Drive 4 117585 Singapore Division of Advanced Materials Engineering Jeonbuk National University 567 Baekje-daero Jeonbuk Jeonju54896 Korea Republic of Jeonbuk National University 567 Baekje-daero Jeonbuk Jeonju54896 Korea Republic of Department of Physics Inha University 100 Inha-ro Incheon22212 Korea Republic of School of Materials Science & Engineering Yeungnam University Gyeongbuk Gyeongsan38541 Korea Republic of 291 Daehak-ro Daejeon34141 Korea Republic of School of Materials Science and Engineering Nanyang Technological University 50 Nanyang Avenue 639798 Singapore Institute of Flexible Electronics Technology of Tsinghua Zhejiang Jiaxing314000 China Nanomaterials and System Lab Major of Mechatronics Engineering Faculty of Applied Energy System Jeju National University Jeju632-43 Korea Republic of School of Engineering University of Glasgow GlasgowG128QQ United Kingdom Seoul02792 Korea Republic of Department of Physics Inha University Incheon22212 Korea Republic of Suwon16419 Korea Republic of Department of

Serious climate changes and energy-related environmental problems are currently critical issues in the world. In order to reduce carbon emissions and save our environment, renewable energy harvesting technologies will serve as a key solution in the near future. Among them, triboelectric nanogenerators (TENGs), which is one of the most promising mechanical energy harvesters by means of contact electrification phenomenon, are explosively developing due to abundant wasting mechanical energy sources and a number of superior advantages in a wide availability and selection of materials, relatively simple device configurations, and low-cost processing. Significant experimental and theoretical efforts have been achieved toward understanding fundamental behaviors and a wide range of demonstrations since its report in 2012. As a result, considerable technological advancement has been exhibited and it advances the timeline of achievement in the proposed roadmap. Now, the technology has reached the stage of prototype development with verification of performance beyond the lab scale environment toward its commercialization. In this review, distinguished authors in the world worked together to summarize the state of the art in theory, materials, devices, systems, circuits, and applications in TENG fields. The great research achievements of researchers in this field around the world over the past decade are expected to play a major role in coming to fruition of unexpectedly accelerated technological advances over the next decade. © 2023 The Authors. Published by American Chemical Society

关键词： Nanogenerators

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Photosynthetically-powered phototactic active nematic fluids and gels

arXiv

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arXiv 2023年

作者： Repula, Andrii Gates, Colin Cameron, Jeffrey C. Smalyukh, Ivan I. Department of Physics University of Colorado BoulderCO80309 United States Renewable and Sustainable Energy Institute National Renewable Energy Laboratory University of Colorado BoulderCO80309 United States Department of Biochemistry University of Colorado BoulderCO80309 United States Hiroshima University Higashihiroshima Hiroshima739-8526 Japan Materials Science and Engineering Program Department of Electrical Computer and Energy Engineering University of Colorado BoulderCO80309 United States

One of the most ancient forms of life dating to ~3.5 billion years ago, cyanobacteria are highly abundant organisms that convert light into energy and motion, often within conjoined filaments and larger colonies. We study how gradients of light intensity trigger orderly phototactic motions and dense bacterial communities, which remained quantitatively unexplored despite being among the oldest forms of active living matter on Earth. The phototaxis drives a transition from initially polar motions of semiflexible long filaments along complex curved spatiotemporal trajectories confined within illuminated areas to their bipolar motility in the ensuing crowded environment. We demonstrate how simply shining light causes a spontaneous self-assembly of two- and three-dimensional active nematic states of cyanobacterial filaments, with a plethora of motile and static topological defects. We quantify light-controlled evolutions of orientational and velocity order parameters during the transition between disordered and orientationally ordered states of our photosynthetic active matter, as well as the subsequent active nematic’s fluid-gel transformation. Patterned illumination and foreign inclusions with different shapes interact with cyanobacterial active nematics in nontrivial ways, while inducing soft interfacial boundary conditions and quasi-boojum-like defects. Commanding this cyanobacterial collective behavior could aid inhibiting generation of toxins or enhancing production of oxygen and biomaterials. Copyright © 2023, The Authors. All rights reserved.

关键词： Defects

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Dose Requirements for Fused Multi-Modal Electron Tomography

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Microscopy and microanalysis : the official journal of Microscopy Society of America, Microbeam Analysis Society, Microscopical Society of Canada 2023年第1期29卷 1968-1969页

作者： Manassa, Jason Schwartz, Jonathan Jiang, Yi Zheng, Huihuo Fessler, Jeffrey A. Wendy Di, Zichao Hovden, Robert Department of Materials Science and Engineering University of Michigan Ann Arbor MI United States Advanced Photon Source Facility Argonne National Laboratory Lemont IL United States Argonne Leadership Computing Facility Argonne National Laboratory Lemont IL United States Department of Electrical Engineering and Computer Science University of Michigan Ann Arbor MI United States Mathematics and Computer Science Division Argonne National Laboratory Lemont IL United States Applied Physics Program University of Michigan Ann Arbor MI United States

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