检索结果-内蒙古大学图书馆

arXiv 2024年

作者： Luan, Tu Cepeda, Victoria Liu, Bo Bowen, Zac Ayyangar, Ujjwal Almeida, Mathieu Hill, Christopher M. Koren, Sergey Treangen, Todd J. Porter, Adam Pop, Mihai Department of Computer Science University of Maryland College ParkMD United States Center for Bioinformatics and Computational Biology University of Maryland College ParkMD United States Fraunhofer USA Center Mid-Atlantic RiverdaleMD United States Genome Informatics Section Computational and Statistical Genomics Branch National Human Genome Research Institute BethesdaMD United States

Metagenomic studies have primarily relied on de novo assembly for reconstructing genes and genomes from microbial mixtures. While reference-guided approaches have been employed in the assembly of single organisms, they have not been used in a metagenomic context. Here we describe the first effective approach for reference-guided metagenomic assembly that can complement and improve upon de novo metagenomic assembly methods for certain organisms. Such approaches will be increasingly useful as more genomes are sequenced and made publicly available. © 2024, CC BY.

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Protocol for Brain Magnetic Resonance Imaging and Extraction of Imaging‑Derived Phenotypes from the China Phenobank Project

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Phenomics 2023年第6期3卷 642-656页

作者： Chengyan Wang Zhang Shi Yan Li Xueqin Xia Xutong Kuang Shufang Qian Le Xue Lizhen Lan Yudan Wu Na Zhang Ji Tao Xumei Hu Wenzhao Cao Naying He Yike Guo Weibo Chen Jun Zhang Jingchun Luo He Wang Mei Tian Human Phenome Institute Fudan University825 Zhangheng RoadPudong New DistrictShanghai 201203China Department of Radiology Zhongshan HospitalFudan UniversityShanghai 200032China Department of Radiology Ruijin HospitalShanghai Jiao Tong University School of MedicineShanghai 200025China Department of Nuclear Medicine and Medical PET Center The Second Afliated Hospital of Zhejiang University School of MedicineHangzhou 310003China Department of Computer Science Hong Kong Baptist UniversityHong Kong Special Administrative Region 999077China Data Science Institute Imperial College LondonLondon SW72AZUK Philips Healthcare Co.Shanghai 200070China Department of Radiology Huashan HospitalNational Center for Neurological DisordersFudan UniversityShanghai 200040China Institute of Science and Technology for Brain-Inspired Intelligence Fudan UniversityShanghai 200433China Key Laboratory of Computational Neuroscience and Brain-Inspired Intelligence Ministry of EducationFudan UniversityShanghai 200433China

Imaging-derived phenotypes(IDPs)have been increasingly used in population-based cohort studies in recent *** widely reported,magnetic resonance imaging(MRI)is an important imaging modality for assessing the anatomical structure and function of the brain with high resolution and excellent soft-tissue *** purpose of this article was to describe the imaging protocol of the brain MRI in the China Phenobank Project(CHPP).Each participant underwent a 30-min brain MRI scan as part of a 2-h whole-body imaging protocol in *** brain imaging sequences included T1-magnetization that prepared rapid gradient echo,T2 fuid-attenuated inversion-recovery,magnetic resonance angiography,difusion MRI,and resting-state functional *** detailed descriptions of image acquisition,interpretation,and post-processing were provided in this *** measured IDPs included volumes of brain subregions,cerebral vessel geometrical parameters,microstructural tracts,and function connectivity metrics.

关键词： human phenome project Phenobank Brain magnetic resonance imaging Imaging derived phenotypes Standard protocol

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Reply to:comment on"Early cancer detection by serum biomolecular fingerprinting spectroscopy with machine learning"

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光：科学与应用（英文版） 2025年第2期14卷 566-578页

作者： Shilian Dong Dong He Qian Zhang Chaoning Huang Zhiheng Hu Chenyang Zhang Lei Nie Kun Wang Wei Luo Jing Yu Bin Tian Wei Wu Xu Chen Fubing Wang Jing Hu Xiangheng Xiao School of Physics and Technology National Demonstration Center for Experimental Physics EducationWuhan UniversityWuhan 430072China Department of Laboratory Medicine Zhongnan Hospital of Wuhan UniversityWuhan 430071China School of Computer Science Wuhan UniversityWuhan 430072China Department of Hepatobiliary Pancreatic Surgery Hubei Cancer HospitalTongji Medical CollegeHuazhong University of Science and TechnologyWuhan 430079China Department of Clinical Laboratory Tianjin Medical University General HospitalTianjin 300052China Department of Blood Transfusion Wuhan Hospital of Traditional Chinese and Western MedicineTongji Medical CollegeHuazhong University of Science and TechnologyWuhan 430022China Laboratory of Printable Functional Materials and Printed Electronics Research Center for Graphic CommunicationPrinting and PackagingWuhan UniversityWuhan 430072China Sichuan Provincial Key Laboratory for Human Disease Gene Study and the Center for Medical Genetics Department of Laboratory MedicineSichuan Academy of Medical Sciences & Sichuan Provincial People's HospitalUniversity of Electronic Science and TechnologyChengdu 611731China School of Medicine University of Electronic Science and Technology of ChinaChengdu 611731China

Dear Editor, In the accompanying Comment,Bratchenko et *** two concerns about the spectral data analysis pipeline employed for the Surface-enhanced Raman scattering and Artificial Intelligence for Cancer Screening(SERS-AICS)technique in our original paper1:(1)inappropriate accu-racy presentation and(2)the use of a single data split for model *** a promising technique for molecular fingerprinting,SERS-based early cancer detection approaches using biofluids and liquid biopsy are typically evaluated based strictly on their accuracy and reliability2-8.

关键词： fingerprinting learning detection cancer with biomolecular comment early machine reply

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Technology Roadmap for Flexible Sensors

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ACS NANO 2023年第6期17卷 5211-5295页

作者： Luo, Yifei Abidian, Mohammad Reza Ahn, Jong-Hyun Akinwande, Deji Andrews, Anne M. Antonietti, Markus Bao, Zhenan Berggren, Magnus Berkey, Christopher A. Bettinger, Christopher John Chen, Jun Chen, Peng Cheng, Wenlong Cheng, Xu Choi, Seon-Jin Chortos, Alex Dagdeviren, Canan Dauskardt, Reinhold H. Di, Chong-an Dickey, Michael D. Duan, Xiangfeng Facchetti, Antonio Fan, Zhiyong Fang, Yin Feng, Jianyou Feng, Xue Gao, Huajian Gao, Wei Gong, Xiwen Guo, Chuan Fei Guo, Xiaojun Hartel, Martin C. He, Zihan Ho, John S. Hu, Youfan Huang, Qiyao Huang, Yu Huo, Fengwei Hussain, Muhammad M. Javey, Ali Jeong, Unyong Jiang, Chen Jiang, Xingyu Kang, Jiheong Karnaushenko, Daniil Khademhosseini, Ali Kim, Dae-Hyeong Kim, Il-Doo Kireev, Dmitry Kong, Lingxuan Lee, Chengkuo Lee, Nae-Eung Lee, Pooi See Lee, Tae-Woo Li, Fengyu Li, Jinxing Liang, Cuiyuan Lim, Chwee Teck Lin, Yuanjing Lipomi, Darren J. Liu, Jia Liu, Kai Liu, Nan Liu, Ren Liu, Yuxin Liu, Yuxuan Liu, Zhiyuan Liu, Zhuangjian Loh, Xian Jun Lu, Nanshu Lv, Zhisheng Magdassi, Shlomo Malliaras, George G. Matsuhisa, Naoji Nathan, Arokia Niu, Simiao Pan, Jieming Pang, Changhyun Pei, Qibing Peng, Huisheng Qi, Dianpeng Ren, Huaying Rogers, John A. Rowe, Aaron Schmidt, Oliver G. Sekitani, Tsuyoshi Seo, Dae-Gyo Shen, Guozhen Sheng, Xing Shi, Qiongfeng Someya, Takao Song, Yanlin Stavrinidou, Eleni Su, Meng Sun, Xuemei Takei, Kuniharu Tao, Xiao-Ming Tee, Benjamin C. K. Thean, Aaron Voon-Yew Trung, Tran Quang Wan, Changjin Wang, Huiliang Wang, Joseph Wang, Ming Wang, Sihong Wang, Ting Wang, Zhong Lin Weiss, Paul S. Wen, Hanqi Xu, Sheng Xu, Tailin Yan, Hongping Yan, Xuzhou Yang, Hui Yang, Le Yang, Shuaijian Yin, Lan Yu, Cunjiang Yu, Guihua Yu, Jing Yu, Shu-Hong Yu, Xinge Zamburg, Evgeny Zhang, Haixia Zhang, Xiangyu Zhang, Xiaosheng Zhang, Xueji Zhang, Yihui Zhang, Yu Zhao, Siyuan Zhao, Xuanhe Zheng, Yuanjin Zheng, Yu-Qing Zheng, Zijian Zhou, Tao Zhu, Bowen Zhu, Ming Zhu, Rong Zhu, Yangzhi Zhu, Yong Zou, Guijin Chen, Xiaodong 08-03 Innovis Singapore 138634 Republic of Singapore Innovative Centre for Flexible Devices (iFLEX) School of Materials Science and Engineering Nanyang Technological University Singapore 639798 Singapore Department of Biomedical Engineering University of Houston Houston Texas 77024 United States School of Electrical and Electronic Engineering Yonsei University Seoul 03722 Republic of Korea Department of Electrical and Computer Engineering The University of Texas at Austin Austin Texas 78712 United States Microelectronics Research Center The University of Texas at Austin Austin Texas 78758 United States Department of Chemistry and Biochemistry California NanoSystems Institute and Department of Psychiatry and Biobehavioral Sciences Semel Institute for Neuroscience and Human Behavior and Hatos Center for Neuropharmacology University of California Los Angeles Los Angeles California 90095 United States Colloid Chemistry Department Max Planck Institute of Colloids and Interfaces 14476 Potsdam Germany Department of Chemical Engineering Stanford University Stanford California 94305 United States Laboratory of Organic Electronics Department of Science and Technology Campus Norrköping Linköping University 83 Linköping Sweden Wallenberg Initiative Materials Science for Sustainability (WISE) and Wallenberg Wood Science Center (WWSC) SE-100 44 Stockholm Sweden Department of Materials Science and Engineering Stanford University Stanford California 94301 United States Department of Biomedical Engineering and Department of Materials Science and Engineering Carnegie Mellon University Pittsburgh Pennsylvania 15213 United States Department of Bioengineering University of California Los Angeles Los Angeles California 90095 United States School of Chemistry Chemical Engineering and Biotechnology Nanyang Technological University Singapore 637457 Singapore Nanobionics Group Department of Chemical and Biological Engineering Monash University Clayton Australia 3800 Monash

humans rely increasingly on sensors to address grand challenges and to improve quality of life in the era of digitalization and big data. For ubiquitous sensing, flexible sensors are developed to overcome the limitations of conventional rigid counterparts. Despite rapid advancement in bench-side research over the last decade, the market adoption of flexible sensors remains limited. To ease and to expedite their deployment, here, we identify bottlenecks hindering the maturation of flexible sensors and propose promising solutions. We first analyze continued...challenges in achieving satisfactory sensing performance for real-world applications and then summarize issues in compatible sensor-biology interfaces, followed by brief discussions on powering and connecting sensor networks. Issues en route to commercialization and for sustainable growth of the sector are also analyzed, highlighting environmental concerns and emphasizing nontechnical issues such as business, regulatory, and ethical considerations. Additionally, we look at future intelligent flexible sensors. In proposing a comprehensive roadmap, we hope to steer research efforts towards common goals and to guide coordinated development strategies from disparate communities. Through such collaborative

关键词： soft materials mechanics engineering flexible electronics conformable sensors bioelectronics human-machine interfaces body area sensor networks technology translation sustainable electronics

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Algorithmic Mirror: Designing an Interactive Tool to Promote Self-Reflection for YouTube Recommendations

arXiv

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arXiv 2025年

作者： Kondo, Yui Dunnell, Kevin Xiao, Qing Zhao, Jun Rocher, Luc Oxford Internet Institute University of Oxford United Kingdom MIT Media Lab Massachusetts Institute of Technology United States Human-Computer Interaction Institute Carnegie Mellon University United States Department of Computer Science University of Oxford United Kingdom

Big Data analytics and Artificial Intelligence systems derive non-intuitive and often unverifiable inferences about individuals’ behaviors, preferences, and private lives. Drawing on diverse, feature-rich datasets of unpredictable value, these systems erode the intuitive connection between our actions and how we are perceived, diminishing control over our digital identities. While Explainable Artificial Intelligence scholars have attempted to explain the inner workings of algorithms, their visualizations frequently overwhelm end-users with complexity. This research introduces ‘hypothetical inference’—a novel approach that uses language models to simulate how algorithms might interpret users’ digital footprints and infer personal characteristics without requiring access to proprietary platform algorithms. Through empirical studies with fourteen adult participants, we identified three key design opportunities to foster critical algorithmic literacy: (1) reassembling scattered digital footprints into a unified map, (2) simulating algorithmic inference through LLM-generated interpretations, and (3) incorporating temporal dimensions to visualize evolving patterns. This research lays the groundwork for tools that can help users recognize the influence of data on platforms and develop greater autonomy in increasingly algorithm-mediated digital environments. Copyright © 2025, The Authors. All rights reserved.

关键词： Video analysis

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Towards expert gaze modeling and recognition of a user’s attention in realtime

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Procedia computer science 2020年 176卷 2020-2029页

作者： Nora Castner Lea Geßler David Geisler Fabian Hüttig Enkelejda Kasneci Human-Computer Interaction University of Tübingen Germany Institute of Computer Science University of Tübingen Germany Department of Prosthodontics University Hospital Tübingen Germany

One of the appealing areas of expertise research is devoted to measuring the effectiveness of training programs for novices. With recent progress in eye tracking, gaze-based interaction systems recognize a user’s attention and can direct it accordingly. Moreover, dynamic visualization of an expert gaze model facilitates novice training by guiding the gaze to relevant areas. In addition, the system should be aware of realtime attention to remove an overlay that could occlude relevant information. We use an implementation of subtle gaze direction (SGD) and the simplified scanpath of a dentist to train naive participants in finding anomalies in dental radiographs. We were able to effectively direct user gaze to relevant image features without occluding the area when attention was recognized. Additionally, participants reported that the intervention was helpful for image inspection. The results of the model intervention show minimal improvements in anomaly detection, which is expected of naive subjects. We advocate that the system has the potential to be highly effective for advanced students and trainees with a certain foundation of conceptual knowledge.

关键词： Eye Tracking Gaze-based interaction Attention Guiding Expertise Learning

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A SSIM Guided cGAN Architecture For Clinically Driven Generative Image Synthesis of Multiplexed Spatial Proteomics Channels

A SSIM Guided cGAN Architecture For Clinically Driven Genera...

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IEEE Symposium on Computational Intelligence and Bioinformatics and Computational Biology (CIBCB)

作者： Jillur Rahman Saurav Mohammad Sadegh Nasr Helen H Shang Paul Koomey Michael Robben Manfred Huber Jon Weidanz Bríd Ryan Eytan Ruppin Peng Jiang Jacob M. Luber Department of Computer Science University of Texas at Arlington Multi-Interprofessional Center for Health Informatics University of Texas at Arlington Division of Internal Medicine Ronald Reagan University of California Los Angeles Medical Center Department of Bioengineering University of Texas at Arlington Department of Kinesiology University of Texas at Arlington Laboratory of Human Carcinogenesis Center for Cancer Research National Cancer Institute National Institutes of Health Cancer Data Science Laboratory Center for Cancer Research National Cancer Institute National Institutes of Health

Histopathological work in clinical labs often relies on immunostaining of proteins, which can be time-consuming and costly. Multiplexed spatial proteomics imaging can increase interpretive power, but current methods cannot cost-effectively sample the entire proteomic retinue important to diagnostic medicine or drug development. To address this challenge, we developed a conditional generative adversarial network (cGAN) that performs image-to-image (i2i) synthesis to generate accurate biomarker channels in multiplexed spatial proteomics images 1 . We approached this problem as missing biomarker expression generation, where we assumed that a given n-channel multiplexed image has p channels (biomarkers) present and q channels (biomarkers) absent, with p+q=n, and we aimed to generate the missing q channels. To improve accuracy, we selected p and q channels based on their structural similarity, as measured by a structural similarity index measure (SSIM). We demonstrated the effectiveness of our approach using spatial proteomic data from the human BioMolecular Atlas Program (HuBMAP) 2 , which we used to generate spatial representations of missing proteins through a U-Net based image synthesis pipeline. Channels were hierarchically clustered by SSIM to obtain the minimal set needed to recapitulate the underlying biology represented by the spatial landscape of proteins. We also assessed the scalability of our algorithm using regression slope analysis, which showed that it can generate increasing numbers of missing biomarkers in multiplexed spatial proteomics images. Furthermore, we validated our approach by generating a new spatial proteomics data set from human lung adenocarcinoma tissue sections and showed that our model could accurately synthesize the missing channels from this new data set. Overall, our approach provides a cost-effective and time-efficient alternative to traditional immunostaining methods for generating missing biomarker channels, while also increasing t

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Material manifestations of dislocation and (Re)connection 17

Material manifestations of dislocation and (Re)connection

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17th European Conference on computer Supported Cooperative Work, ECSCW 2019

作者： Smit, Dorothé Krischkowsky, Alina Beuthel, Janne Mascha Maurer, Bernhard Fuchsberger, Verena Murer, Martin Tscheligi, Manfred Devendorf, Laura Zaman, Bieke Nouwen, Marije Aal, Konstantin Center for Human-Computer Interaction University of Salzburg Austria ATLAS Institute Dept. of Information Science University of Colorado United States KU Leuven Belgium Institute for Information Systems and New Media University of Siegen Germany

This workshop focuses on the material qualities of dislocation. The process of humans becoming separated from each other is likely to have diverse consequences;from shifting frequency, modes, or routines of communication and collaboration, to completely alternate means of connection. In this workshop, we aim to discuss a broad range of material manifestations and implications of (researching and designing for) dislocation. While engaging with material qualities of dislocation, we will reflect on the state of the art, discuss research gaps and potentials, and explore hands-on how design can create opportunities for (re)connection in response to dislocation through the creation of tangible interfaces. © 2019 held by Authors.

关键词： Interface states

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When Does an Individual Accept Misinformation? 43

When Does an Individual Accept Misinformation?

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43rd Annual Meeting of the Cognitive science Society: Comparative Cognition: Animal Minds, CogSci 2021

作者： Borukhson, David Lorenz-Spreen, Philipp Ragni, Marco Department for Computer Science University of Freiburg Germany Center for Adaptive Rationality Max Planck Institute for Human Development Berlin Germany Danish Institute for Advanced Studies South Denmark University Odense Denmark Cognitive Computation Lab Technical Faculty University of Freiburg Germany

A new phenomenon is the spread and acceptance of "fake news" on an individual user level, facilitated by social media such as Twitter. So far, state of the art socio–psychological theories and cognitive models focus on explaining how the accuracy of fake news is judged on average, with little consideration of the individual. This paper takes it to a new level: A breadth of core models are comparatively assessed on their predictive accuracy for the individual decision maker, i.e., how well can models predict an individual’s decision before the decision is made. To conduct this analysis, it requires the raw responses of each individual and the implementation and adaption of theories to predict the individual’s response. We used two previously collected large data sets with a total of 3309 participants and searched for, analyzed and refined existing classical and heuristic modeling approaches. The results suggest that classical reasoning, sentiment analysis models and heuristic approaches can best predict the "Accept" or "Reject" response of a person. A hybrid model that combines those models outperformed the prediction of all individual models pointing to an adaptive tool-box. © Cognitive science Society: Comparative Cognition: Animal Minds, CogSci *** rights reserved.

关键词： Sentiment analysis

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Mixed reality based respiratory liver tumor puncture navigation

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Computational Visual Media 2019年第4期5卷 363-374页

作者： Ruotong Li Weixin Si Xiangyun Liao Qiong Wang Reinhard Klein Pheng-Ann Heng Institute of Computer Science II University of Bonn53115 BonnGermany Shenzhen Key Laboratory of Virtual Reality and Human Interaction Technology Shenzhen Institutes of Advanced TechnologyChinese Academy of SciencesChina Department of Computer Science and Engineering Chinese University of Hong KongHong KongChina

This paper presents a novel mixed reality based navigation system for accurate respiratory liver tumor punctures in radiofrequency ablation(RFA).Our system contains an optical see-through head-mounted display device(OST-HMD),Microsoft Holo Lens for perfectly overlaying the virtual information on the patient,and a optical tracking system NDI Polaris for calibrating the surgical utilities in the surgical *** with traditional navigation method with CT,our system aligns the virtual guidance information and real patient and real-timely updates the view of virtual guidance via a position tracking *** addition,to alleviate the difficulty during needle placement induced by respiratory motion,we reconstruct the patientspecific respiratory liver motion through statistical motion model to assist doctors precisely puncture liver *** proposed system has been experimentally validated on vivo pigs with an accurate real-time registration approximately 5-mm mean FRE and TRE,which has the potential to be applied in clinical RFA guidance.

关键词： mixed reality human computer interaction statistical motion model

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