Answer to the comments of K. Dobbin, J. Shih and R. Simon on the paper ‘Evaluation of the gene-specific dye-bias in cDNA microarray experiments’
Algorithms for alignment of mass spectrometry proteomic data
Cis-regulatory element based targeted gene finding: genome-wide identification of abscisic acid- and abiotic stress-responsive genes in Arabidopsis thaliana
A multiple-feature framework for modelling and predicting transcription factor binding sites
Computational approaches for identification of conserved/unique binding pockets in the A chain of ricin
Sample size for FDR-control in microarray data analysis
Hotelling's T 2 multivariate profiling for detecting differential expression in microarrays
Ensemble dependence model for classification and prediction of cancer and normal gene expression data
Classification of oligonucleotide fingerprints: application for microbial community and gene expression analyses
A Bayesian regression approach to the inference of regulatory networks from gene expression data
Proteomic mass spectra classification using decision tree based ensemble methods
Knowledge-based computational search for genes associated with the metabolic syndrome
A criticality-based framework for task composition in multi-agent bioinformatics integration systems
TAMO: a flexible, object-oriented framework for analyzing transcriptional regulation using DNA-sequence motifs
INTERALIGN: interactive alignment editor for distantly related protein sequences
Association mapping and fine mapping with TreeLD
jPHYDIT: a JAVA-based integrated environment for molecular phylogeny of ribosomal RNA sequences
Dynamite extended: two new services to simplify protein dynamic analysis
PMUT: a web-based tool for the annotation of pathological mutations on proteins
HCPM—program for hierarchical clustering of protein models
SCHIP: statistics for chromosome interphase positioning based on interchange data
SDMinP: a program to control the family wise error rate using step-down minP adjusted P-values
M@CBETH: a microarray classification benchmarking tool
GMCheck: Bayesian error checking for pedigree genotypes and phenotypes
Fast parsers for Entrez Gene
ABNER: an open source tool for automatically tagging genes, proteins and other entity names in text
CGHMultiArray: exact P-values for multi-array comparative genomic hybridization data
MEPD: a resource for medaka gene expression patterns
Dasty and UniProt DAS: a perfect pair for protein feature visualization