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- GPCR-OKB: the G Protein Coupled Receptor Oligomer Knowledge Base
- Integrative platform to translate gene sets to networks
- ABC-SysBio--approximate Bayesian computation in Python with GPU support
- Ab initio gene identification in metagenomic sequences
- High accuracy operon prediction method based on STRING database scores
- Binary particle swarm optimization for operon prediction
- FuncBase : a resource for quantitative gene function annotation
- The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell
- Predicting post-translational lysine acetylation using support vector machines
- Interactive software tool to comprehend the calculation of optimal sequence alignments with dynamic programming
Nucleic Acids Research
- Highly-multiplexed barcode sequencing: an efficient method for parallel analysis of pooled samples
- Site-specific labeling of Saccharomyces cerevisiae ribosomes for single-molecule manipulations
- Combination of RNA interference and U1 inhibition leads to increased inhibition of gene expression
- Titration-free massively parallel pyrosequencing using trace amounts of starting material
- A fluorescence-based reporter substrate for monitoring RNA editing in trypanosomatid pathogens
Bioinformatics
- Structure-based variable selection for survival data
- SVDetect: a tool to identify genomic structural variations from paired-end and mate-pair sequencing data
- Cassis: detection of genomic rearrangement breakpoints
- Parallelization of the MAFFT multiple sequence alignment program
- An alignment algorithm for bisulfite sequencing using the Applied Biosystems SOLiD System
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