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Multiplexed imaging allows multiple cell types to be simultaneously visualised in a single tissue sample, generating unprecedented amounts of spatially-resolved, biological data. In topological data analysis, persistent homology provides…

Quantitative Methods · Quantitative Biology 2025-05-06 Maria Torras-Pérez , Iris H. R. Yoon , Praveen Weeratunga , Ling-Pei Ho , Helen M. Byrne , Ulrike Tillmann , Heather A. Harrington

Tools to analyze the latent space of deep neural networks provide a step towards better understanding them. In this work, we motivate sparse subspace clustering (SSC) with an aim to learn affinity graphs from the latent structure of a given…

Machine Learning · Computer Science 2021-07-06 Uday Singh Saini , Pravallika Devineni , Evangelos E. Papalexakis

Spectral clustering is a popular method for effectively clustering nonlinearly separable data. However, computational limitations, memory requirements, and the inability to perform incremental learning challenge its widespread application.…

Machine Learning · Computer Science 2023-11-15 Jo-Chun Chen , Hung-Hsuan Chen

Spatial Transcriptomics (ST) enables the measurement of gene expression while preserving spatial information, offering critical insights into tissue architecture and disease pathology. Recent developments have explored the use of…

Computer Vision and Pattern Recognition · Computer Science 2026-05-20 Hai Dang Nguyen , Nguyen Dang Huy Pham , The Minh Duc Nguyen , Dac Thai Nguyen , Hang Thi Nguyen , Duong M. Nguyen

Biological spiking neurons with intrinsic dynamics underlie the powerful representation and learning capabilities of the brain for processing multimodal information in complex environments. Despite recent tremendous progress in spiking…

Neural and Evolutionary Computing · Computer Science 2021-07-15 Mingkun Xu , Yujie Wu , Lei Deng , Faqiang Liu , Guoqi Li , Jing Pei

Spectral clustering is a celebrated algorithm that partitions objects based on pairwise similarity information. While this approach has been successfully applied to a variety of domains, it comes with limitations. The reason is that there…

Statistics Theory · Mathematics 2018-05-24 Kwangjun Ahn , Kangwook Lee , Changho Suh

We consider the problem of multiway clustering in the presence of unknown degree heterogeneity. Such data problems arise commonly in applications such as recommendation system, neuroimaging, community detection, and hypergraph partitions in…

Statistics Theory · Mathematics 2023-01-25 Jiaxin Hu , Miaoyan Wang

In recent years, multi-view subspace clustering has achieved impressive performance due to the exploitation of complementary imformation across multiple views. However, multi-view data can be very complicated and are not easy to cluster in…

Computer Vision and Pattern Recognition · Computer Science 2021-06-21 Peng Chen , Liang Liu , Zhengrui Ma , Zhao Kang

Topological photonics provides a robust and flexible platform for controlling light, enabling functionalities such as backscattering-immune edge transport and slow-light propagation. In this work, we design and characterize photonic…

Optics · Physics 2025-05-12 Ondřej Novák , Martin Veis , Gervasi Herranz

Nuclear segmentation in histology images is a challenging task due to significant variations in the shape and appearance of nuclei. One of the main hurdles in nuclear instance segmentation is overlapping nuclei where a smart algorithm is…

Image and Video Processing · Electrical Eng. & Systems 2019-08-28 Navid Alemi Koohbanani , Mostafa Jahanifar , Ali Gooya , Nasir Rajpoot

Segmentation is a critical task in computational pathology, as it identifies areas affected by disease or abnormal growth and is essential for diagnosis and treatment. However, acquiring high-quality pixel-level supervised segmentation data…

Computer Vision and Pattern Recognition · Computer Science 2026-05-07 Zhiling Yan , Sicheng Chen , Tianyi Zhang , Nan Ying , Yanli Lei , Guanglei Zhang

In this paper, we introduce a Fast and Scalable Semi-supervised Multi-view Subspace Clustering (FSSMSC) method, a novel solution to the high computational complexity commonly found in existing approaches. FSSMSC features linear…

Machine Learning · Computer Science 2024-08-13 Huaming Ling , Chenglong Bao , Jiebo Song , Zuoqiang Shi

Topological correctness plays a critical role in many image segmentation tasks, yet most networks are trained using pixel-wise loss functions, such as Dice, neglecting topological accuracy. Existing topology-aware methods often lack robust…

Computer Vision and Pattern Recognition · Computer Science 2025-04-21 Laurin Lux , Alexander H. Berger , Alexander Weers , Nico Stucki , Daniel Rueckert , Ulrich Bauer , Johannes C. Paetzold

Partitioning a graph into groups of vertices such that those within each group are more densely connected than vertices assigned to different groups, known as graph clustering, is often used to gain insight into the organisation of large…

Machine Learning · Statistics 2014-01-28 Charanpal Dhanjal , Romaric Gaudel , Stéphan Clémençon

Accurate segmentation of tubular and curvilinear structures, such as blood vessels, neurons, and road networks, is crucial in various applications. A key challenge is ensuring topological correctness while maintaining computational…

Image and Video Processing · Electrical Eng. & Systems 2025-03-21 Siyi Wu , Leyi Zhao , Haotian Ma , Xinyuan Song

Graph-based learning is a cornerstone for analyzing structured data, with node classification as a central task. However, in many real-world graphs, nodes lack informative feature vectors, leaving only neighborhood connectivity and class…

Machine Learning · Computer Science 2025-10-14 Sujan Chakraborty , Rahul Bordoloi , Anindya Sengupta , Olaf Wolkenhauer , Saptarshi Bej

Urban structure detection is a basic task in urban geography. Clustering is a core technology to detect the patterns of urban spatial structure, urban functional region, and so on. In big data era, diverse urban sensing datasets recording…

Social and Information Networks · Computer Science 2017-07-13 Xin Lin , Haifeng Li , Yan Zhang , Lei Gao , Ling Zhao , Min Deng

Subspace clustering (SC) algorithms utilize the union of subspaces model to cluster data points according to the subspaces from which they are drawn. To better address separability of subspaces and robustness to noise we propose a wavelet…

Machine Learning · Computer Science 2024-06-07 Ivica Kopriva , Damir Sersic

Computational topologists recently developed a method, called persistent homology to analyze data presented in terms of similarity or dissimilarity. Indeed, persistent homology studies the evolution of topological features in terms of a…

Quantitative Methods · Quantitative Biology 2017-08-01 Pavel Petrov , Stephen T Rush , Zhichun Zhai , Christine H Lee , Peter T Kim , Giseon Heo

The rapid development of spatial transcriptomics (ST) offers new opportunities to explore the gene expression patterns within the spatial microenvironment. Current research integrates pathological images to infer gene expression, addressing…

Computer Vision and Pattern Recognition · Computer Science 2025-03-03 Junchao Zhu , Ruining Deng , Tianyuan Yao , Juming Xiong , Chongyu Qu , Junlin Guo , Siqi Lu , Yucheng Tang , Daguang Xu , Mengmeng Yin , Yu Wang , Shilin Zhao , Yaohong Wang , Haichun Yang , Yuankai Huo