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Genome wide comparisons between enteric bacteria yield large sets of conserved putative regulatory sites on a gene by gene basis that need to be clustered into regulons. Using the assumption that regulatory sites can be represented as…

Biological Physics · Physics 2009-11-07 Erik van Nimwegen , Mihaela Zavolan , Nikolaus Rajewsky , Eric D. Siggia

Algorithmic fairness in clustering aims to balance the proportions of instances assigned to each cluster with respect to a given sensitive attribute. While recently developed fair clustering algorithms optimize clustering objectives under…

Machine Learning · Computer Science 2025-10-24 Kunwoong Kim , Jihu Lee , Sangchul Park , Yongdai Kim

We study here the semi-supervised $k$-clustering problem where information is available on whether pairs of objects are in the same or in different clusters. This information is either available with certainty or with a limited level of…

Machine Learning · Computer Science 2024-10-21 Philipp Baumann , Dorit S. Hochbaum

Clustering algorithms have significantly improved along with Deep Neural Networks which provide effective representation of data. Existing methods are built upon deep autoencoder and self-training process that leverages the distribution of…

Computer Vision and Pattern Recognition · Computer Science 2021-09-17 Xin Ma , Won Hwa Kim

Finding a good clustering of vertices in a network, where vertices in the same cluster are more tightly connected than those in different clusters, is a useful, important, and well-studied task. Many clustering algorithms scale well,…

Social and Information Networks · Computer Science 2011-10-18 Thomas DuBois , Jennifer Golbeck , Aravind Srinivasan

Clustering is widely used for unsupervised structure discovery, yet it offers limited insight into how reliable each individual assignment is. Diagnostics, such as convergence behavior or objective values, may reflect global quality, but…

Machine Learning · Computer Science 2026-05-15 Aggelos Semoglou , John Pavlopoulos

Clustering has been widely applied to Information Retrieval (IR) on the grounds of its potential improved effectiveness over inverted file search. Clustering is a mostly unsupervised procedure and the majority of the clustering algorithms…

Information Retrieval · Computer Science 2014-01-14 Pokkuluri Kiran Sree , Inampudi Ramesh Babu

Clustering analysis is fundamental in single-cell RNA sequencing (scRNA-seq) data analysis for elucidating cellular heterogeneity and diversity. Recent graph-based scRNA-seq clustering methods, particularly graph neural networks (GNNs),…

Machine Learning · Computer Science 2025-07-15 Ping Xu , Pengfei Wang , Zhiyuan Ning , Meng Xiao , Min Wu , Yuanchun Zhou

Bayesian clustering methods have the widely touted advantage of providing a probabilistic characterization of uncertainty in clustering through the posterior distribution. An amazing variety of priors and likelihoods have been proposed for…

Methodology · Statistics 2025-11-21 Garritt L. Page , Andrés F. Barrientos , David B. Dahl , David B. Dunson

Deep clustering can optimize representations of instances (i.e., representation learning) and explore the inherent data distribution (i.e., clustering) simultaneously, which demonstrates a superior performance over conventional clustering…

Computer Vision and Pattern Recognition · Computer Science 2023-11-27 Qi Qian

Ensemble clustering integrates a set of base clustering results to generate a stronger one. Existing methods usually rely on a co-association (CA) matrix that measures how many times two samples are grouped into the same cluster according…

Machine Learning · Computer Science 2023-02-24 Yuheng Jia , Sirui Tao , Ran Wang , Yongheng Wang

Clustering is a NP-hard problem. Thus, no optimal algorithm exists, heuristics are applied to cluster the data. Heuristics can be very resource-intensive, if not applied properly. For substantially large data sets computational efficiencies…

Databases · Computer Science 2020-03-11 Mujahid Sultan

Principal component analysis (PCA), the most popular dimension-reduction technique, has been used to analyze high-dimensional data in many areas. It discovers the homogeneity within the data and creates a reduced feature space to capture as…

Methodology · Statistics 2026-03-24 Daning Bi , Le Chang , Yanrong Yang

This paper presents a clustering approach that allows for rigorous statistical error control similar to a statistical test. We develop estimators for both the unknown number of clusters and the clusters themselves. The estimators depend on…

Statistics Theory · Mathematics 2017-07-13 Michael Vogt , Matthias Schmid

Self-supervised learning (SSL) methods via joint embedding architectures have proven remarkably effective at capturing semantically rich representations with strong clustering properties, magically in the absence of label supervision.…

Machine Learning · Computer Science 2025-05-13 Xi Weng , Jianing An , Xudong Ma , Binhang Qi , Jie Luo , Xi Yang , Jin Song Dong , Lei Huang

Count data is becoming more and more ubiquitous in a wide range of applications, with datasets growing both in size and in dimension. In this context, an increasing amount of work is dedicated to the construction of statistical models…

Clustering is one of the most common unsupervised learning tasks in machine learning and data mining. Clustering algorithms have been used in a plethora of applications across several scientific fields. However, there has been limited…

Machine Learning · Computer Science 2017-02-09 Quang N. Tran , Ba-Ngu Vo , Dinh Phung , Ba-Tuong Vo

Model-based clustering is widely-used in a variety of application areas. However, fundamental concerns remain about robustness. In particular, results can be sensitive to the choice of kernel representing the within-cluster data density.…

Machine Learning · Statistics 2019-06-27 Leo L Duan , David B Dunson

Pairwise clustering, in general, partitions a set of items via a known similarity function. In our treatment, clustering is modeled as a transductive prediction problem. Thus rather than beginning with a known similarity function, the…

Machine Learning · Computer Science 2017-06-21 Stephen Pasteris , Fabio Vitale , Claudio Gentile , Mark Herbster

A novel nonparametric clustering algorithm is proposed using the interpoint distances between the members of the data to reveal the inherent clustering structure existing in the given set of data, where we apply the classical nonparametric…

Methodology · Statistics 2024-09-02 Soumita Modak