The SNP ratio test: pathway analysis of genome-wide association datasets - Summary: We present a tool that assesses the enrichment of significant associations from genome-wide association studies (GWAS) in a pathway context.

Caleydo: connecting pathways and gene expression - Summary: Understanding the relationships between pathways and the altered expression of their components in disease conditions can be addressed in a visual data analysis process.

FRED--a framework for T-cell epitope detection - Summary: Over the last decade, immunoinformatics has made significant progress. Computational approaches, in particular the prediction of T-cell epitopes using machine learning methods, are at the core of modern vaccine design.

FBA-SimVis: interactive visualization of constraint-based metabolic models - Summary: FBA-SimVis is a VANTED plug-in for the constraint-based analysis of metabolic models with special focus on the visual exploration of metabolic flux data resulting from model analysis.

CoCoa: a software tool for estimating the coefficient of coancestry from multilocus genotype data - Motivation: Phenotypic data collected in breeding programs and marker-trait association studies are often analyzed by means of linear mixed models.

Studying human telomerase gene transcription by a chromatinized reporter generated by recombinase-mediated targeting of a bacterial artificial chromosome - The endogenous human telomerase reverse transcriptase (hTERT) gene is repressed in somatic cells.

Separation of 1-23-kb complementary DNA strands by urea-agarose gel electrophoresis - Double-stranded (ds), as well as denatured, single-stranded (ss) DNA samples can be analyzed on urea–agarose gels.

Extracting transcription factor targets from ChIP-Seq data - ChIP-Seq technology, which combines chromatin immunoprecipitation (ChIP) with massively parallel sequencing, is rapidly replacing ChIP-on-chip for the genome-wide identification of transcription factor binding events.

Preparation of selective and segmentally labeled single-stranded DNA for NMR by self-primed PCR and asymmetrical endonuclease double digestion - We demonstrate a new, efficient and easy-to-use method for enzymatic synthesis of (stereo-)specific and segmental 13C/15N/2H isotope-labeled

Conserved principles of mammalian transcriptional regulation revealed by RNA half-life - RNA levels in a cell are regulated by the relative rates of RNA synthesis and decay.