PICKY: oligo microarray design for large genomes
Letter to the Editor
Comparative analysis of protein unfoldedness in human housekeeping and non-housekeeping proteins
Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequences
A Bayesian connectivity-based approach to constructing probabilistic gene regulatory networks
Mean and variance of the Gibbs free energy of oligonucleotides in the nearest neighbor model under varying conditions
Reconstruction of gene networks using Bayesian learning and manipulation experiments
Bayesian integrated functional analysis of microarray data
A spline function approach for detecting differentially expressed genes in microarray data analysis
Transmembrane proteins in the Protein Data Bank: identification and classification
EST clustering error evaluation and correction
Supervised machine learning techniques for the classification of metabolic disorders in newborns
Visualizations for taxonomic and phylogenetic trees
Quantitative DNA methylation analysis based on four-dye trace data from direct sequencing of PCR amplificates
Protein complex prediction via cost-based clustering
Biologically valid linear factor models of gene expression
Sample classification from protein mass spectrometry, by ‘peak probability contrasts’
Taverna: a tool for the composition and enactment of bioinformatics workflows
Predicting the efficacy of short oligonucleotides in antisense and RNAi experiments with boosted genetic programming
A comparative method for identification of gene structures and alternatively spliced variants
Developing optimal non-linear scoring function for protein design
Comparison of probabilistic combination methods for protein secondary structure prediction
Variance-modeled posterior inference of microarray data: detecting gene-expression changes in 3T3-L1 adipocytes
Standardization and denoising algorithms for mass spectra to classify whole-organism bacterial specimens
Constrained clusters of gene expression profiles with pathological features
A statistical method for identifying differential gene–gene co-expression patterns
The UniMarker (UM) method for synteny mapping of large genomes
Differences in gene expression between B-cell chronic lymphocytic leukemia and normal B cells: a meta-analysis of three microarray studies
Prediction of phosphorylation sites using SVMs
Systematic benchmarking of microarray data classification: assessing the role of non-linearity and dimensionality reduction
Normalization of microarray data using a spatial mixed model analysis which includes splines
BioRAT: extracting biological information from full-length papers
Computational prediction of RNA editing sites
A model-based optimization framework for the inference on gene regulatory networks from DNA array data
UniProt archive
Bio-Mirror project for public bio-data distribution
GOLDsurfer: three dimensional display of linkage disequilibrium
lga972: a cross-platform application for optimizing LD studies using a genetic algorithm
Java Treeview—extensible visualization of microarray data
An entity tagger for recognizing acquired genomic variations in cancer literature
Automatic annotation of organellar genomes with DOGMA
CTRD: a fast applet for computing signed translocation distance between genomes
TMRPres2D: high quality visual representation of transmembrane protein models
QuickJoin—fast neighbour-joining tree reconstruction
SNPicker: a graphical tool for primer picking in designing mutagenic endonuclease restriction assays
The CRASSS plug-in for integrating annotation data with hierarchical clustering results
BioSilico: an integrated metabolic database system
POINT: a database for the prediction of protein–protein interactions based on the orthologous interactome
PTGL—a web-based database application for protein topologies
HumanMSD and MouseMSD: generating genetic maps for human and murine microsatellite markers
A web portal for classification of expression data using maximal margin linear programming
Phan3D: design of biological phantoms in 3D electron microscopy
BioNetGen: software for rule-based modeling of signal transduction based on the interactions of molecular domains