检索结果-内蒙古大学图书馆

arXiv 2023年

作者： Song, Andrew H. Jaume, Guillaume Williamson, Drew F.K. Lu, Ming Y. Vaidya, Anurag Miller, Tiffany R. Mahmood, Faisal Department of Pathology Brigham and Women's Hospital Harvard Medical School BostonMA United States Department of Pathology Massachusetts General Hospital 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 Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology CambridgeMA United States Harvard-MIT Division of Health Sciences and Technology Massachusetts Institute of Technology CambridgeMA United States Harvard Medical School BostonMA United States

Advances in digitizing tissue slides and the fast-paced progress in artificial intelligence, including deep learning, have boosted the field of computational pathology. This field holds tremendous potential to automate clinical diagnosis, predict patient prognosis and response to therapy, and discover new morphological biomarkers from tissue images. Some of these artificial intelligence-based systems are now getting approved to assist clinical diagnosis;however, technical barriers remain for their widespread clinical adoption and integration as a research tool. This Review consolidates recent methodological advances in computational pathology for predicting clinical end points in whole-slide images and highlights how these developments enable the automation of clinical practice and the discovery of new biomarkers. We then provide future perspectives as the field expands into a broader range of clinical and research tasks with increasingly diverse modalities of clinical data. © 2023, CC BY.

关键词： Pathology

来源：评论

学校读者我要写书评

暂无评论

A pretrained transformer model for decoding individual glucose dynamics from continuous glucose monitoring data

引用

National science Review 2025年第5期 362-381页

作者： Yurun Lu Dan Liu Zhongming Liang Rui Liu Pei Chen Yitong Liu Jiachen Li Zhanying Feng Lei M.Li Bin Sheng Weiping Jia Luonan Chen Huating Li Yong Wang Center for Excellence in Mathematical Sciences National Center for Mathematics and Interdisciplinary Sciences Hua Loo-Keng Center for Mathematical Sciences Key Laboratory of Management Decision and Information System Academy of Mathematics and Systems ScienceChinese Academy of Sciences School of Mathematics University of Chinese Academy of SciencesChinese Academy of Sciences Department of Endocrinology and Metabolism Shanghai Sixth People's Hospital Affiliated to Shanghai Jiao Tong University School of MedicineShanghai Diabetes InstituteShanghai Clinical Center for Diabetes Shanghai Key Laboratory of Diabetes Mellitus Key Laboratory of Systems Health Science of Zhejiang Province School of Life ScienceHangzhou Institute for Advanced StudyUniversity of Chinese Academy of Sciences BGI-Research School of Mathematics South China University of Technology Department of Statistics Department of Biomedical Data Science Bio-X ProgramStanford University Department of Computer Science and Engineering Shanghai Jiao Tong University State Key Laboratory of Cell Biology Center for Excellence in Molecular Cell Science Shanghai Institute of Biochemistry and Cell Biology Chinese Academy of Sciences Guangdong Institute of Intelligence Science and Technology Pazhou Laboratory (Huangpu)

Continuous glucose monitoring(CGM) technology has grown rapidly to track real-time blood glucose levels and trends with improved sensor accuracy. The ease of use and wide availability of CGM will facilitate safe and effective decision making for diabetes management. Here, we developed an attention-based deep learning model, CGMformer, pretrained on a well-controlled and diverse corpus of CGM data to represent individual's intrinsic metabolic state and enable clinical applications. During pretraining, CGMformer encodes glucose dynamics including glucose level, fluctuation, hyperglycemia, and hypoglycemia into latent space with self-supervised learning. It shows generalizability in imputing glucose value across five external datasets with different populations and metabolic states(MAE = 3.7 mg/d L). We then fine-tuned CGMformer towards a diverse panel of downstream tasks in the screening of diabetes and its complications using task-specific data, which demonstrated a consistently boosted predictive accuracy over direct fine-tuning on a single task(AUROC = 0.914 for type 2 diabetes(T2D) screening and 0.741 for complication screening). By learning an intrinsic representation of an individual's glucose dynamics,CGMformer classifies non-diabetic individuals into six clusters with elevated T2D risks, and identifies a specific cluster with lean body-shape but high risk of glucose metabolism disorders, which is overlooked by traditional glucose measurements. Furthermore, CGMformer achieves high accuracy in predicting an individual's postprandial glucose response with dietary modelling(Pearson correlation coefficient = 0.763)and helps personalized dietary recommendations. Overall, CGMformer pretrains a transformer neural network architecture to learn an intrinsic representation by borrowing information from a large amount of daily glucose profiles, and demonstrates predictive capabilities fine-tuned towards a broad range of downstream applications, holding promise for the ear

关键词：

来源：评论

学校读者我要写书评

暂无评论

Structural analysis based on unsupervised learning: Search for a characteristic low-dimensional space by local structures in atomistic simulations

引用

Physical Review B 2022年第7期105卷 075107-075107页

作者： Ryo Tamura Momo Matsuda Jianbo Lin Yasunori Futamura Tetsuya Sakurai Tsuyoshi Miyazaki International Center for Materials Nanoarchitectonics National Institute for Materials Science Tsukuba 305-0044 Japan Research and Services Division of Materials Data and Integrated System National Institute for Materials Science Tsukuba 305-0044 Japan Graduate School of Frontier Sciences The University of Tokyo Chiba 277-8568 Japan Department of Computer Science University of Tsukuba Tsukuba 305-8573 Japan Center for Artificial Intelligence University of Tsukuba Tsukuba 305-8573 Japan Master's/Doctoral Program in Life Science Innovation University of Tsukuba Tsukuba 305-8577 Japan

Owing to the advances in computational techniques and the increase in computational power, atomistic simulations of materials can simulate large systems with higher accuracy. Complex phenomena can be observed in such state-of-the-art atomistic simulations. However, it has become increasingly difficult to understand what is actually happening and mechanisms, for example, in molecular dynamics (MD) simulations. We propose an unsupervised machine learning method to analyze the local structure around a target atom. The proposed method, which uses the two-step locality preserving projections (TS-LPP), can find a low-dimensional space wherein the distributions of data points for each atom or groups of atoms can be properly captured. We demonstrate that the method is effective for analyzing the MD simulations of crystalline, liquid, and amorphous states and the melt-quench process from the perspective of local structures. The proposed method is demonstrated on a silicon single-component system, a silicon-germanium binary system, and a copper single-component system.

关键词： Amorphous materials Machine learning Molecular dynamics

来源：评论

学校读者我要写书评

暂无评论

Tractably modelling dependence in networks beyond exchangeability

arXiv

引用

arXiv 2020年

作者： Wu, Weichi Olhede, Sofia Wolfe, Patrick Center for Statistical Sciences Department of Industrial Engineering Tsinghua University China Institute of Mathematics Chair of Statistical Data Science EPFL Swaziland Departments of Statistics and Computer Science Purdue University United States

We propose a general framework for modelling network data that is designed to describe aspects of non-exchangeable networks. Conditional on latent (unobserved) variables, the edges of the network are generated by their finite growth history (with latent orders) while the marginal probabilities of the adjacency matrix are modeled by a generalization of a graph limit function (or a graphon). In particular, we study the estimation, clustering and degree behavior of the network in our setting. We determine (i) the minimax estimator of a composite graphon with respect to squared error loss;(ii) that spectral clustering is able to consistently detect the latent membership when the block-wise constant composite graphon is considered under additional conditions;and (iii) we are able to construct models with heavy-tailed empirical degrees under specific scenarios and parameter choices. This explores why and under which general conditions non-exchangeable network data can be described by a stochastic block model. The new modelling framework is able to capture empirically important characteristics of network data such as sparsity combined with heavy tailed degree distribution, and add understanding as to what generative mechanisms will make them *** Codes 62G05, 62R07, 62E20, 62G20, secondary 53C20 Copyright © 2020, The Authors. All rights reserved.

关键词： Clustering algorithms

来源：评论

学校读者我要写书评

暂无评论

A general semi-parametric elliptical distribution model for semi-supervised learning

引用

Journal of Nonparametric Statistics 2025年第2期37卷

作者： Chin-Tsang Chiang Sheng-Hsin Fan Ming-Yueh Huang Jen-Chieh Teng Alvin Lim a Institute of Applied Mathematical Sciences National Taiwan University Taipei Taiwan b Department of Mathematics National Taiwan University Taipei Taiwan c Institute of Statistical Science Academia Sinica Taipei Taiwan d Data Science Degree Program National Taiwan University Taipei Taiwan e Data Science Department Measured Inc. Austin TX USAf Goizueta Business School Emory University Atlanta GA USA

ABSTRACTThis research proposes a novel semi-parametric elliptical distribution model for application in semi-supervised learning tasks. We use labelled and unlabelled data to develop a pseudo maximum likelihood method for estimation and classification. The proposed estimator outperforms the estimator based solely on labelled data and achieves the semi-parametric efficiency bound with a suitable size of unlabelled data. We efficiently maximise the objective function by utilising low-dimensional groupwise pseudo-likelihood functions in a block coordinate descent manner while ensuring numerical stability and convergence through appropriate bandwidth selectors and initial parameter estimates. Additionally, the study comprehensively investigates the impact of labelled and unlabelled data on the pseudo maximum likelihood estimator and classifier. Simulation studies and empirical data applications illustrate the superiority of our methodology.

关键词： elliptical distribution posterior group probability pseudo maximum likelihood method semi-parametric efficiency semi-supervised learning

来源：评论

学校读者我要写书评

暂无评论

Building Ramps and Pathways to data science in K-12, Minority-Serving Institutions, and Two-Year Colleges

引用

Scatterplot 2024年第1期1卷

作者： Rachel Saidi Helen Burn Ben Baumer Jason Black Debzani Deb Zarek Drozda a Math Statistics and Data Science Department Montgomery College – Rockville Campus Rockville MD USA b Mathematics Department Highline College Des Moines Washington Des Moines WA USA c Statistical and Data Sciences Department Smith College Northampton MA USA d School of Business and Interdisciplinary Center for Creativity and Innovation (ICCI) Florida A&M University Tallahassee FL USA e Computer Science Department Center for Applied Data Science (CADS) Winston-Salem State University Winston-Salem NC USA f Data Science 4 Everyone (DS4E) Program University of Chicago Chicago IL USA

Global demand for data scientists and analysts is on a trajectory of sustained growth, underscoring the need to expand enrollment of students in data science and data analytics courses and programs. This article explores diverse pathways to data science for various groups, including high school students, those in two-year colleges, and students in small colleges and minority-serving institutions. This article identifies opportunities and challenges associated with pursuing data science for students in these sectors, including factors such as building partnerships and awareness of the field and difficulties in establishing articulation agreements between institutions. The authors, representing various organizations participating in a panel discussion at the 2023 data science Leadership Summit of the Academic data science Alliance (ADSA), share insights into efforts to develop nontraditional pathways, serving as a resource for schools, colleges, and organizations contemplating creation of data science programs. The panelists’ combined experience spans work with a broad range of organizations including ADSA, American Mathematics Association of Two-Year Colleges, American statistical Association, data science for Everyone, the department of Education, HBCU data science Consortium, Mathematical Association of America, National Academies of science, Engineering, and Medicine, HBCU data science Consortium, National science Foundation, and StatPREP.

关键词： data science pathways access K-12 minority-serving institution two-year college

来源：评论

学校读者我要写书评

暂无评论

Scientific discovery in the age of artificial intelligence

引用

NATURE 2023年第7978期621卷 E33-E33页

作者： Wang, Hanchen Fu, Tianfan Du, Yuanqi Gao, Wenhao Huang, Kexin Liu, Ziming Chandak, Payal Liu, Shengchao Van Katwyk, Peter Deac, Andreea Anandkumar, Anima Bergen, Karianne Gomes, Carla P. Ho, Shirley Kohli, Pushmeet Lasenby, Joan Leskovec, Jure Liu, Tie-Yan Manrai, Arjun Marks, Debora Ramsundar, Bharath Song, Le Sun, Jimeng Tang, Jian Velickovic, Petar Welling, Max Zhang, Linfeng Coley, Connor W. Bengio, Yoshua Zitnik, Marinka Department of Engineering University of Cambridge Cambridge UK Department of Computing and Mathematical Sciences California Institute of Technology Pasadena CA USA NVIDIA Santa Clara CA USA Department of Computational Science and Engineering Georgia Institute of Technology Atlanta GA USA Department of Computer Science Cornell University Ithaca NY USA Department of Chemical Engineering Massachusetts Institute of Technology Cambridge MA USA Department of Electrical Engineering and Computer Science Massachusetts Institute of Technology Cambridge MA USA Department of Computer Science Stanford University Stanford CA USA Department of Physics Massachusetts Institute of Technology Cambridge MA USA Harvard-MIT Program in Health Sciences and Technology Cambridge MA USA Mila – Quebec AI Institute Montreal Quebec Canada Université de Montréal Montreal Quebec Canada HEC Montréal Montreal Quebec Canada CIFAR AI Chair Toronto Ontario Canada Department of Earth Environmental and Planetary Sciences Brown University Providence RI USA Data Science Institute Brown University Providence RI USA Center for Computational Astrophysics Flatiron Institute New York NY USA Department of Astrophysical Sciences Princeton University Princeton NJ USA Department of Physics Carnegie Mellon University Pittsburgh PA USA Department of Physics and Center for Data Science New York University New York NY USA Google DeepMind London UK Department of Computer Science and Technology University of Cambridge Cambridge UK Microsoft Research Beijing China Department of Biomedical Informatics Harvard Medical School Boston MA USA Broad Institute of MIT and Harvard Cambridge MA USA Harvard Data Science Initiative Cambridge MA USA Kempner Institute for the Study of Natural and Artificial Intelligence Harvard University Cambridge MA USA Department of Systems Biology Harvard Medical School Boston MA USA Deep Forest Sciences Palo Alto CA USA BioMap Beijing China Mo

来源：评论

学校读者我要写书评

暂无评论

Reconstruction of Fragmented Trajectories of Collective Motion using Hadamard Deep Autoencoders

arXiv

引用

arXiv 2021年

作者： Gajamannage, Kelum Park, Yonggi Paffenroth, Randy Jayasumana, Anura P. Department of Mathematics and Statistics Texas A&M University–Corpus Christi Corpus ChristiTX78412 United States Department of Mathematical Sciences Department of Computer Science Data Science Program Worcester Polytechnic Institute WorcesterMA01609 United States Department of Electrical and Computer Engineering Colorado State University Fort CollinsCO80525 United States

Learning dynamics of collectively moving agents such as fish or humans is an active field in research. Due to natural phenomena such as occlusion and change of illumination, the multi-object methods tracking such dynamics might lose track of the agents where that might result fragmentation in the constructed trajectories. Here, we present an extended deep autoencoder (DA) that we train only on fully observed segments of the trajectories by defining its loss function as the Hadamard product of a binary indicator matrix with the absolute difference between the outputs and the labels. The trajectories of the agents practicing collective motion is low-rank due to mutual interactions and dependencies between the agents that we utilize as the underlying pattern that our Hadamard deep autoencoder (HDA) codes during its training. The performance of our HDA is compared with that of a low-rank matrix completion scheme in the context of fragmented trajectory reconstruction. © 2021, CC BY.

关键词： Learning systems

来源：评论

学校读者我要写书评

暂无评论

AI-driven 3D Spatial Transcriptomics

arXiv

引用

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

来源：评论

学校读者我要写书评

暂无评论

Multimodal deep learning models utilizing chest X-ray and electronic health record data for predictive screening of acute heart failure in emergency department

引用

computer Methods and programs in Biomedicine 2024年 255卷 108357页

作者： Lee, Chih-Kuo Chen, Ting-Li Wu, Jeng-En Liao, Min-Tsun Wang, Chiehhung Wang, Weichung Chou, Cheng-Ying Department of Internal Medicine National Taiwan University Hospital Hsin-Chu Branch No. 25 Ln. 442 Sec. 1 Jingguo Rd. Taiwan Hsinchu300 Taiwan Institute of Statistical Science Academia Sinica 128 Academia Rd. Nankang Taiwan Taipei11529 Taiwan Master Program in Statistics National Taiwan University 1 Sec. 4 Roosevelt Rd. Taiwan Taipei106 Taiwan Data Science Degree Program National Taiwan University 1 Sec. 4 Roosevelt Rd. Taiwan Taipei106 Taiwan Institute of Applied Mathematical Sciences National Taiwan University 1 Sec. 4 Roosevelt Rd. Taiwan Taipei106 Taiwan Department of Biomechatronics Engineering National Taiwan University 1 Sec. 4 Roosevelt Rd. Taiwan Taipei106 Taiwan

Background and Objectives: Ambiguity in diagnosing acute heart failure (AHF) leads to inappropriate treatment and potential side effects of rescue medications. To address this issue, this study aimed to use multimodality deep learning models combining chest X-ray (CXR) and electronic health record (EHR) data to screen patients with abnormal N-terminal pro-B-type natriuretic peptide (NT-proBNP) levels in emergency departments. Methods: Using the open-source dataset MIMIC-IV and MIMIC[sbnd]CXR, the study population consisted of 1,432 patients and 1,833 pairs of CXRs and EHRs. We processed the CXRs, extracted relevant features through lung-heart masks, and combined these with the vital signs at triage to predict corresponding NT-proBNP levels. Results: The proposed method achieved a 0.89 area under the receiver operating characteristic curve by fusing predictions from single-modality models of heart size ratio, radiomic features, CXR, and the region of interest in the CXR. The model can accurately predict dyspneic patients with abnormal NT-proBNP concentrations, allowing physicians to reduce the risks associated with inappropriate treatment. Conclusion: The study provided new image features related to AHF and offered insights into future research directions. Overall, these models have great potential to improve patient outcomes and reduce risks in emergency departments. © 2024 Elsevier B.V.

关键词： Image segmentation

来源：评论

学校读者我要写书评

暂无评论

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

请选择保存的检索档案：

请选择收藏分类：

通借通还

建议与咨询 留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

时间限定

文献类型

馆藏选择

核心期刊

语言

文献类型

帮助

文字说明：

检索规则说明：

检索范例：

分类表

所选分类

限定检索结果

文献类型

馆藏范围

日期分布

学科分类号

主题

机构

作者

语言

请选择保存的检索档案： 新增检索档案 确定 取消

请选择收藏分类： 新增自定义分类 确定 取消

通借通还

建议与咨询留下您的常用邮箱和电话号码，以便我们向您反馈解决方案和替代方法

请选择保存的检索档案：

请选择收藏分类：