Articles
Low-Order Conditional Independence Graphs for Inferring Genetic Networks
Anja Wille and Peter Bühlmann
A Generalized Clustering Problem, with Application to DNA Microarrays
Ilana Belitskaya-Levy
A Bayes Regression Approach to Array-CGH Data
Chi-Chung Wen, Yuh-Jenn Wu, Yung-Hsiang Huang, Wei-Chen Chen, Shu-Chen Liu, Shih Sheng Jiang, Jyh-Lyh Juang, Chung-Yen Lin, Wen-Tsen Fang, Chao Agnes Hsiung, and I-Shou Chang
Statistical Selection of Maintenance Genes for Normalization of Gene Expressions
Yifan Huang, Jason C. Hsu, Mario Peruggia, and Abigail A. Scott
Predicting the Strongest Domain-Domain Contact in Interacting Protein Pairs
Tom M. W. Nye, Carlo Berzuini, Walter R. Gilks, M. Madan Babu, and Sarah Teichmann
Dimension Reduction for Classification with Gene Expression Microarray Data
Jian J. Dai, Linh Lieu, and David Rocke
A New Type of Stochastic Dependence Revealed in Gene Expression Data
Lev Klebanov, Craig Jordan, and Andrei Yakovlev
A New Order Estimator for Fixed and Variable Length Markov Models with Applications to DNA Sequence Similarity
Daniel Dalevi, Devdatt Dubhashi, and Malte Hermansson
Quality Optimised Analysis of General Paired Microarray Experiments
Erik Kristiansson, Anders Sjögren, Mats Rudemo, and Olle Nerman
Issues of Processing and Multiple Testing of SELDI-TOF MS Proteomic Data
Merrill D. Birkner, Alan E. Hubbard, Mark J. van der Laan, Christine F. Skibola, Christine M. Hegedus, and Martyn T. Smith
Cross-Validated Bagged Prediction of Survival
Sandra E. Sinisi, Romain Neugebauer, and Mark J. van der Laan
Treatment of Uninformative Families in Mean Allele Sharing Tests for Linkage
Indranil Mukhopadhyay, Eleanor Feingold, Tao Wang, Robert C. Elston, and Daniel E. Weeks
Quantile-Function Based Null Distribution in Resampling Based Multiple Testing
Mark J. van der Laan and Alan E. Hubbard
Combining Results of Microarray Experiments: A Rank Aggregation Approach
Robert P. DeConde, Sarah Hawley, Seth Falcon, Nigel Clegg, Beatrice Knudsen, and Ruth Etzioni
Model Selection for Mixtures of Mutagenetic Trees
Junming Yin, Niko Beerenwinkel, Jörg Rahnenführer, and Thomas Lengauer
Pseudo-likelihood for Non-reversible Nucleotide Substitution Models with Neighbour Dependent Rates
Ole F. Christensen
A Method to Increase the Power of Multiple Testing Procedures Through Sample Splitting
Daniel Rubin, Sandrine Dudoit, and Mark van der Laan
Bayesian Hierarchical Model for Correcting Signal Saturation in Microarrays Using Pixel Intensities
Rashi Gupta, Petri Auvinen, Andrew Thomas, and Elja Arjas
Using Complexity for the Estimation of Bayesian Networks
Peter Salzman and Anthony Almudevar
Detecting Local High-Scoring Segments: a First-Stage Approach for Genome-Wide Association Studies
Mickael Guedj, David Robelin, Mark Hoebeke, Marc Lamarine, Jérôme Wojcik, and Gregory Nuel
Examining Protein Structure and Similarities by Spectral Analysis Technique
Krista Collins, Hong Gu, and Chris Field
Parameter Estimation for the Exponential-Normal Convolution Model for Background Correction of Affymetrix GeneChip Data
Monnie McGee and Zhongxue Chen
Approximate Sample Size Calculations with Microarray Data: An Illustration
José A. Ferreira and Aeilko Zwinderman
A Heuristic Bayesian Method for Segmenting DNA Sequence Alignments and Detecting Evidence for Recombination and Gene Conversion
Anna Kedzierska and Dirk Husmeier
A Two-Step Multiple Comparison Procedure for a Large Number of Tests and Multiple Treatments
Hongmei Jiang and Rebecca W. Doerge
Readers' Reactions
Reader's Reaction to "Dimension Reduction for Classification with Gene Expression Microarray Data" by Dai et al (2006)
Anne-Laure Boulesteix
Letters to the Editor
Treating Expression Levels of Different Genes as a Sample in Microarray Data Analysis: Is it Worth a Risk?
Lev Klebanov and Andrei Yakovlev