Comparison of Discrimination Methods for the Classification of Tumors Using Gene Expression Data

DOI10.1198/016214502753479248zbMATH Open1073.62576OpenAlexW1966701961MaRDI QIDQ4468366FDOQ4468366

Authors: Jane Fridlyand, Terence P. Speed, Sandrine Dudoit 

Publication date: 10 June 2004

Published in: Journal of the American Statistical Association (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1198/016214502753479248

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Mathematics Subject Classification ID

Classification and discrimination; cluster analysis (statistical aspects) (62H30) Applications of statistics to biology and medical sciences; meta analysis (62P10) Medical applications (general) (92C50) Biochemistry, molecular biology (92C40)

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• Combining several screening tests: optimality of the risk score
• Two-group classification with high-dimensional correlated data: a factor model approach
• Multiclass sparse logistic regression for classification of multiple cancer types using gene expression data
• A review of modern multiple hypothesis testing, with particular attention to the false discovery proportion
• Bayesian variable selection in multinomial probit model for classifying high-dimensional data
• Variational discriminant analysis with variable selection
• Shrinkage-based diagonal Hotelling's tests for high-dimensional small sample size data
• Some theory for Fisher's linear discriminant function, `naive Bayes', and some alternatives when there are many more variables than observations
• Classification of cyclical time series using complex demodulation
• Bundling classifiers by bagging trees
• A distance-based, misclassification rate adjusted classifier for multiclass, high-dimensional data
• PCA consistency for the power spiked model in high-dimensional settings
• Dimension reduction strategies for analyzing global gene expression data with a response
• Regularized orthogonal linear discriminant analysis
• Robust classification using \(\ell _{2,1}\)-norm based regression model
• Stability of feature selection in classification issues for high-dimensional correlated data
• Improved second order estimation in the singular multivariate normal model
• Variable selection for Fisher linear discriminant analysis using the modified sequential backward selection algorithm for the microarray data
• Bayesian Classification of Tumours by Using Gene Expression Data
• Penalized model-based clustering
• Clustering and classification based on the L\(_{1}\) data depth
• Algorithmic paradigms for stability-based cluster validity and model selection statistical methods, with applications to microarray data analysis
• Feature selection with SVD entropy: some modification and extension
• Sparse sufficient dimension reduction using optimal scoring
• Improved methods for the imputation of missing data by nearest neighbor methods
• Discrimination of locally stationary time series using wavelets
• A new and fast implementation for null space based linear discriminant analysis
• Shrinkage-based diagonal discriminant analysis and its applications in high-dimensional data
• Bias-corrected diagonal discriminant rules for high-dimensional classification
• Boosting for high-dimensional linear models
• High dimensional covariance matrix estimation by penalizing the matrix-logarithm transformed likelihood
• Improved Stein-type shrinkage estimators for the high-dimensional multivariate normal covariance matrix
• Penalized model-based clustering with unconstrained covariance matrices
• Estimation of the precision matrix of a singular Wishart distribution and its application in high-dimensional data
• Bandwidth choice for nonparametric classification
• Comprehensive comparative analysis and identification of RNA-binding protein domains: multi-class classification and feature selection
• Finding predictive gene groups from microarray data
• Testing the structure of the covariance matrix with fewer observations than the dimension
• Estimation of multivariate 3rd moment for high-dimensional data and its application for testing multivariate normality
• Robust penalized logistic regression with truncated loss functions
• Variable selection in linear mixed effects models
• Variable Selection in Penalized Model‐Based Clustering Via Regularization on Grouped Parameters
• Customer base analysis: partial defection of behaviourally loyal clients in a non-contractual FMCG retail setting
• A test for the mean vector with fewer observations than the dimension
• Tilting methods for assessing the influence of components in a classifier
• Optimal feature selection for sparse linear discriminant analysis and its applications in gene expression data
• Marginal asymptotics for the ``large \(p\), small \(n\) paradigm: with applications to microarray data
• On selecting interacting features from high-dimensional data
• Stein's method in high dimensional classification and applications
• Asymptotic inference for high-dimensional data
• Variable selection for multicategory SVM via adaptive sup-norm regularization
• Asymtotics of Dantzig selector for a general single-index model
• Ensemble quantile classifier
• Selection bias in gene extraction on the basis of microarray gene-expression data
• Bayesian variable selection in clustering high-dimensional data via a mixture of finite mixtures
• Sparse Bayesian multinomial probit regression model with correlation prior for high-dimensional data classification
• Geometric Classifier for Multiclass, High-Dimensional Data
• Regularized \(k\)-means clustering of high-dimensional data and its asymptotic consistency
• Knowledge discovery by accuracy maximization
• Classification and clustering of sequencing data using a Poisson model
• Variable selection and dependency networks for genomewide data
• Projection Pursuit Based on Gaussian Mixtures and Evolutionary Algorithms
• Alternating direction method of multipliers for penalized zero-variance discriminant analysis
• Sliced Inverse Regression with Regularizations
• Multicategory vertex discriminant analysis for high-dimensional data
• Two-stage procedures for high-dimensional data
• Nonparametric Stein-type shrinkage covariance matrix estimators in high-dimensional settings
• Predicting partial customer churn using Markov for discrimination for modeling first purchase sequences
• Sparse Bayesian hierarchical modeling of high-dimensional clustering problems
• A modified local quadratic approximation algorithm for penalized optimization problems
• A new test for sphericity of the covariance matrix for high dimensional data
• A test for the equality of covariance matrices when the dimension is large relative to the sample sizes
• A simple model‐based approach to variable selection in classification and clustering
• Robust groupwise least angle regression
• A distribution-based Lasso for a general single-index model
• Sphericity and identity test for high-dimensional covariance matrix using random matrix theory
• Modified linear discriminant analysis approaches for classification of high-dimensional microarray data
• Survival prediction using gene expression data: a review and comparison
• High-dimensional classification using features annealed independence rules
• Outlier identification in high dimensions
• Missing value imputation for gene expression data by tailored nearest neighbors
• Estimations for some functions of covariance matrix in high dimension under non-normality and its applications
• Regularization in statistics
• Class prediction and gene selection for DNA microarrays using regularized sliced inverse regression
• Robust depth-based tools for the analysis of gene expression data
• Bayesian semi-supervised learning with support vector machine
• On the singular gamma, Wishart, and beta matrix‐variate density functions
• High-Dimensional Data Classification
• Sparse bayesian kernel multinomial probit regression model for high-dimensional data classification
• The use of random-effect models for high-dimensional variable selection problems
• Applying data mining techniques for cancer classification on gene expression data
• Pattern classification in DNA microarray data of multiple tumor types
• Several biplot methods applied to gene expression data
• Multi-class tumor classification by discriminant partial least squares using microarray gene expression data and assessment of classification models
• Multiple Subject Barycentric Discriminant Analysis (MUSUBADA): how to assign scans to categories without using spatial normalization
• Coordinate ascent for penalized semiparametric regression on high-dimensional panel count data
• Local likelihood regression in generalized linear single-index models with applications to microarray data
• Feature selection and machine learning with mass spectrometry data for distinguishing cancer and non-cancer samples
• Bayesian Weibull tree models for survival analysis of clinico-genomic data
• Consistency of large dimensional sample covariance matrix under weak dependence

Uses Software

• impute

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