Volume 12, issue 1, December 2011
497 articles in this issue
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Partition decoupling for multi-gene analysis of gene expression profiling data
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MotifMap: integrative genome-wide maps of regulatory motif sites for model species
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Identifying elemental genomic track types and representing them uniformly
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A new strategy for better genome assembly from very short reads
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Structural Measures for Network Biology Using QuACN
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MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects
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"Antelope": a hybrid-logic model checker for branching-time Boolean GRN analysis
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Predicting RNA-Protein Interactions Using Only Sequence Information
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Graph based fusion of miRNA and mRNA expression data improves clinical outcome prediction in prostate cancer
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New concepts for building vocabulary for cell image ontologies
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Constructing a semantic predication gold standard from the biomedical literature
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Normalizing for individual cell population context in the analysis of high-content cellular screens
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Morphometic analysis of TCGA glioblastoma multiforme
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Supervised Regularized Canonical Correlation Analysis: integrating histologic and proteomic measurements for predicting biochemical recurrence following prostate surgery
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Cost sensitive hierarchical document classification to triage PubMed abstracts for manual curation
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U-Compare bio-event meta-service: compatible BioNLP event extraction services
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GC-Content Normalization for RNA-Seq Data
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NanoStriDE: normalization and differential expression analysis of NanoString nCounter data
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Survival models with preclustered gene groups as covariates
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A multifaceted analysis of HIV-1 protease multidrug resistance phenotypes
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Phylogenetically informed logic relationships improve detection of biological network organization
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Performance analysis of novel methods for detecting epistasis
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Jetset: selecting the optimal microarray probe set to represent a gene
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Estimation of bacterial diversity using next generation sequencing of 16S rDNA: a comparison of different workflows
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MSACompro: protein multiple sequence alignment using predicted secondary structure, solvent accessibility, and residue-residue contacts
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MeInfoText 2.0: gene methylation and cancer relation extraction from biomedical literature
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Algorithms, data structures, and numerics for likelihood-based phylogenetic inference of huge trees
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SNPInterForest: A new method for detecting epistatic interactions
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openBIS: a flexible framework for managing and analyzing complex data in biology research
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Empirical comparison of cross-platform normalization methods for gene expression data
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Comparison of methods for calculating conditional expectations of sufficient statistics for continuous time Markov chains
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From hybridization theory to microarray data analysis: performance evaluation
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Lack of sufficiently strong informative features limits the potential of gene expression analysis as predictive tool for many clinical classification problems
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Segmentation and intensity estimation for microarray images with saturated pixels
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A unified framework for managing provenance information in translational research
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Semantic annotation of biological concepts interplaying microbial cellular responses
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Integrative set enrichment testing for multiple omics platforms
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Multiple-input multiple-output causal strategies for gene selection
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A novel substitution matrix fitted to the compositional bias in Mollicutes improves the prediction of homologous relationships
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Unintended consequences of existential quantifications in biomedical ontologies
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iRefR: an R package to manipulate the iRefIndex consolidated protein interaction database
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miREE: miRNA recognition elements ensemble
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iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences
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eXframe: reusable framework for storage, analysis and visualization of genomics experiments
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Identification and correction of systematic error in high-throughput sequence data
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Random KNN feature selection - a fast and stable alternative to Random Forests
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ReCount: A multi-experiment resource of analysis-ready RNA-seq gene count datasets
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