Quantitative trait prediction based on genetic marker-array data, a simulation study
A greedy, graph-based algorithm for the alignment of multiple homologous gene lists
A novel hybrid gene prediction method employing protein multiple sequence alignments
A fast, lock-free approach for efficient parallel counting of occurrences of k-mers
A k-mer scheme to predict piRNAs and characterize locust piRNAs
High-accuracy prediction of bacterial type III secreted effectors based on position-specific amino acid composition profiles
Improved side-chain modeling by coupling clash-detection guided iterative search with rotamer relaxation
Computational inference of grammars for larger-than-gene structures from annotated gene sequences
Computational refinement of post-translational modifications predicted from tandem mass spectrometry
Biological assessment of robust noise models in microarray data analysis
Robust linear regression methods in association studies
A method for identifying haplotypes carrying the causative allele in positive natural selection and genome-wide association studies
Identity-by-descent filtering of exome sequence data for disease–gene identification in autosomal recessive disorders
Efficient simulation under a population genetics model of carcinogenesis
Baking a mass-spectrometry data PIE with McMC and simulated annealing : predicting protein post-translational modifications from integrated top-down and bottom-up data
Modular analysis of the probabilistic genetic interaction network
Compression of DNA sequence reads in FASTQ format
Quality control and preprocessing of metagenomic datasets
Bambino : a variant detector and alignment viewer for next-generation sequencing data in the SAM/BAM format
A pipeline for RNA-seq data processing and quality assessment
Identifying dispersed epigenomic domains from ChIP-Seq data
Graphics processing unit implementations of relative expression analysis algorithms enable dramatic computational speedup
GPU accelerated biochemical network simulation
PhyloPro : a web-based tool for the generation and visualization of phylogenetic profiles across Eukarya
HTSanalyzeR : an R/Bioconductor package for integrated network analysis of high-throughput screens
SpaCEM3 : a software for biological module detection when data is incomplete, high dimensional and dependent
OrthoNets : simultaneous visual analysis of orthologs and their interaction neighborhoods across different organisms
The CCPN Metabolomics Project : a fast protocol for metabolite identification by 2D-NMR
CNAmet : an R package for integrating copy number, methylation and expression data
Dalliance : interactive genome viewing on the web
Automated validation of genetic variants from large databases : ensuring that variant references refer to the same genomic locations