Framework for kernel regularization with application to protein clustering

DOI10.1073/PNAS.0505411102MaRDI QIDQ5385850zbMATH OpenOpenAlexWikidataFDO

Authors Fan Lü, Sunduz Keles, Stephen J. Wright, Grace Wahba

Publication date 7 May 2008

Published in Proceedings of the National Academy of Sciences (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1073/pnas.0505411102

zbMATH Keywords

classificationconvex cone programmingdissimilarity informationsequence datatrace penalty

Mathematics Subject Classification ID

Classification and discrimination; cluster analysis (statistical aspects) (62H30) Convex programming (90C25) Applications of mathematical programming (90C90) Biochemistry, molecular biology (92C40)

Recommendations

• Graph-Based Representations in Pattern Recognition
• Kernel methods in machine learning
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• Fast string kernels using inexact matching for protein sequences

Cites work

• Efficient quadratic regularization for expression arrays
• Multicategory Support Vector Machines
• Practical Approximate Solutions to Linear Operator Equations When the Data are Noisy
• Sequence alignment in bioinformatics
• Soft and hard classification by reproducing kernel Hilbert space methods
• Solving semidefinite-quadratic-linear programs using SDPT3
• Some results on Tchebycheffian spline functions and stochastic processes
• Visualization methodology for multidimensional scaling

Cited in

(13)

• \textit{Kernel cuts}: kernel and spectral clustering meet regularization
• A remark on global positioning from local distances
• Localization from incomplete noisy distance measurements
• An implementable proximal point algorithmic framework for nuclear norm minimization
• Unfolding-model-based visualization: theory, method and applications
• Identifying 3D Genome Organization in Diploid Organisms via Euclidean Distance Geometry
• Finding low-rank solutions via nonconvex matrix factorization, efficiently and provably
• Graph-Based Representations in Pattern Recognition
• Distance shrinkage and Euclidean embedding via regularized kernel estimation
• Indefinite proximity learning: a review
• Comment
• Analysis of Variance of Tensor Product Reproducing Kernel Hilbert Spaces on Metric Spaces
• Encoding dissimilarity data for statistical model building

Describes a project that uses

Uses Software

• SDPT3

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