MCMC-ODPR: Primer design optimization using Markov Chain Monte Carlo sampling
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Volume 13, issue 1, December 2012
337 articles in this issue
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Dynamic changes in the secondary structure of ECE-1 and XCE account for their different substrate specificities
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A novel algorithm for simultaneous SNP selection in high-dimensional genome-wide association studies
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Cascaded discrimination of normal, abnormal, and confounder classes in histopathology: Gleason grading of prostate cancer
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Efficient reconstruction of biological networks via transitive reduction on general purpose graphics processors
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Multi-scale RNA comparison based on RNA triple vector curve representation
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ChopSticks: High-resolution analysis of homozygous deletions by exploiting concordant read pairs
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Bayesian semiparametric regression models to characterize molecular evolution
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Simple binary segmentation frameworks for identifying variation in DNA copy number
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Coral: an integrated suite of visualizations for comparing clusterings
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Combing the hairball with BioFabric: a new approach for visualization of large networks
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A quantitative genetic and epigenetic model of complex traits
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Exploiting protein flexibility to predict the location of allosteric sites
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Gene expression anti-profiles as a basis for accurate universal cancer signatures
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dsPIG: a tool to predict imprinted genes from the deep sequencing of whole transcriptomes
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Combining multiple hypothesis testing and affinity propagation clustering leads to accurate, robust and sample size independent classification on gene expression data
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Gene Fusion Markup Language: a prototype for exchanging gene fusion data
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Simple regression models as a threshold for selecting AFLP loci with reduced error rates
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MetNet Online: a novel integrated resource for plant systems biology
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Tissue-based Alzheimer gene expression markers–comparison of multiple machine learning approaches and investigation of redundancy in small biomarker sets
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Supervised segmentation of phenotype descriptions for the human skeletal phenome using hybrid methods
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Sifting through genomes with iterative-sequence clustering produces a large, phylogenetically diverse protein-family resource
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Improving the thermostability of alpha-amylase by combinatorial coevolving-site saturation mutagenesis
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Cluster-based assessment of protein-protein interaction confidence
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Semantic similarity in the biomedical domain: an evaluation across knowledge sources
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Frnakenstein: multiple target inverse RNA folding
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Formatt: Correcting protein multiple structural alignments by incorporating sequence alignment
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DMET-Analyzer: automatic analysis of Affymetrix DMET Data
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Coalescent: an open-source and scalable framework for exact calculations in coalescent theory
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A scalable method for identifying frequent subtrees in sets of large phylogenetic trees
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Normalized N50 assembly metric using gap-restricted co-linear chaining
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VarioML framework for comprehensive variation data representation and exchange
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G-NEST: a gene neighborhood scoring tool to identify co-conserved, co-expressed genes
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QUAliFiER: An automated pipeline for quality assessment of gated flow cytometry data
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The Process-Interaction-Model: a common representation of rule-based and logical models allows studying signal transduction on different levels of detail
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Quantitative biomedical annotation using medical subject heading over-representation profiles (MeSHOPs)
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The simulation of meiosis in diploid and tetraploid organisms using various genetic models
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ESTclean: a cleaning tool for next-gen transcriptome shotgun sequencing
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ncRNAclassifier: a tool for detection and classification of transposable element sequences in RNA hairpins
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An algorithm for chemical genomic profiling that minimizes batch effects: bucket evaluations
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The LO-BaFL method and ALS microarray expression analysis
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Quality assessment of protein model-structures based on structural and functional similarities
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Graph rigidity reveals well-constrained regions of chromosome conformation embeddings
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The Ruby UCSC API: accessing the UCSC genome database using Ruby
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SNP calling by sequencing pooled samples
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Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory
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