Articles
Coalescent Time Distributions in Trees of Arbitrary Size
Sam Efromovich and Laura Salter Kubatko
Quantifying the Association between Gene Expressions and DNA-Markers by Penalized Canonical Correlation Analysis
Sandra Waaijenborg, Philip C. Verselewel de Witt Hamer, and Aeilko H. Zwinderman
Nonparametric Functional Mapping of Quantitative Trait Loci Underlying Programmed Cell Death
Yuehua Cui, Rongling Wu, George Casella, and Jun Zhu
Accommodating Uncertainty in a Tree Set for Function Estimation
Brian C. Healy, Victor G. DeGruttola, and Chengcheng Hu
Comparing the Characteristics of Gene Expression Profiles Derived by Univariate and Multivariate Classification Methods
Manuela Zucknick, Sylvia Richardson, and Euan A. Stronach
Calculating Confidence Intervals for Prediction Error in Microarray Classification Using Resampling
Wenyu Jiang, Sudhir Varma, and Richard Simon
Structure Learning in Nested Effects Models
Achim Tresch and Florian Markowetz
Correcting the Estimated Level of Differential Expression for Gene Selection Bias: Application to a Microarray Study
David R. Bickel
Adapting Prediction Error Estimates for Biased Complexity Selection in High-Dimensional Bootstrap Samples
Harald Binder and Martin Schumacher
Adaptive Choice of the Number of Bootstrap Samples in Large Scale Multiple Testing
Wenge Guo and Shyamal Peddada
Re-Cracking the Nucleosome Positioning Code
Mark R. Segal
Semi-Parametric Differential Expression Analysis via Partial Mixture Estimation
David Rossell, Rudy Guerra, and Clayton Scott
A SNP Streak Model for the Identification of Genetic Regions Identical-by-descent
Gregory Leibon, Daniel N. Rockmore, and Martin R. Pollak
Detecting Two-Locus Gene-Gene Effects Using Monotonisation of the Penetrance Matrix
Susanne Henningsson and Staffan I. Nilsson
Modeling DNA Methylation in a Population of Cancer Cells
Kimberly D. Siegmund, Paul Marjoram, and Darryl Shibata
Phenotyping Genetic Diseases Using an Extension of µ-Scores for Multivariate Data
José F. Morales, Tingting Song, Arleen D. Auerbach, and Knut M. Wittkowski
The Estimator of the Optimal Measure of Allelic Association: Mean, Variance and Probability Distribution When the Sample Size Tends to Infinity
Brigitte Mangin, Pauline Garnier-Géré, and Christine Cierco-Ayrolles
Predicting Protein Concentrations with ELISA Microarray Assays, Monotonic Splines and Monte Carlo Simulation
Don Simone Daly, Kevin K. Anderson, Amanda M. White, Rachel M. Gonzalez, Susan M. Varnum, and Richard C. Zangar
A Comparison of Normalization Techniques for MicroRNA Microarray Data
Youlan Rao, Yoonkyung Lee, David Jarjoura, Amy S. Ruppert, Chang-gong Liu, Jason C. Hsu, and John P. Hagan
Collapsing SNP Genotypes in Case-Control Genome-Wide Association Studies Increases the Type I Error Rate and Power
Abigail G. Matthews, Chad Haynes, Chang Liu, and Jurg Ott
Estimating Number of Clusters Based on a General Similarity Matrix with Application to Microarray Data
Shafagh Fallah, David Tritchler, and Joseph Beyene
Data Distribution of Short Oligonucleotide Expression Arrays and Its Application to the Construction of a Generalized Intellectual Framework
Tomokazu Konishi
Software Communications
TRAB: Testing Whether Mutation Frequencies Are Above an Unknown Background
Giovanni Parmigiani, Sining Chen, and Victor E. Velculescu