STAR: ultrafast universal RNA-seq aligner

Alexander Dobin, Carrie Davis, Felix Schlesinger, +6

Bioinformatics

limma powers differential expression analyses for RNA-sequencing and microarray studies

Matthew E. Ritchie, Belinda Phipson, Di Wu, +4

Nucleic Acids Research

GeneticsMolecular BiologyTranscriptomics TechnologyLimma PackageGenomics +17

Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments

Gordon K. Smyth

Statistical Applications in Genetics and Molecular Biology

Transcriptomics TechnologyEmpirical Bayes MethodsLinear ModelsGene Expression ProfilingComputational Genomics +19

Principal components analysis corrects for stratification in genome-wide association studies

Alkes L. Price, Nick J. Patterson, Robert M. Plenge, +3

Nature Genetics

Genome-wide Association StudyHaplotype DeterminationGenotype-phenotype AssociationGeneticsLinkage Analysis +6

A map of human genome variation from population-scale sequencing

Nature

Human VariationMedicineGeneticsHuman Genome VariationGenetic Variation +4

Integrative analysis of 111 reference human epigenomes

Anshul Kundaje, Wouter Meuleman, Jason Ernst, +91

Nature

BioinformaticsChromatinGenome-wide Association StudyMedicineGenetics +12

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

Charity W. Law, Yunshun Chen, Wei Shi, +1

Genome biology

The <tt>sva</tt> package for removing batch effects and other unwanted variation in high-throughput experiments

Jeffrey T. Leek, W. Evan Johnson, Hilary S. Parker, +2

Bioinformatics

The Genotype-Tissue Expression (GTEx) pilot analysis: Multitissue gene regulation in humans

Kristin G. Ardlie, David S. DeLuca, Ayellet V. Segrè, +136

Science

Genetic effects on gene expression across human tissues

Nature

GeneticsGenomicsGene Expression ProfilingGenome-wide Association StudyGenetic Analysis +14