Single-Cell Transcriptomics Reveals a Population of Dormant Neural Stem Cells that Become Activated upon Brain Injury

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin, Carrie Davis, Felix Schlesinger et al. · Bioinformatics · 2012 · 56.2K citations · Full text

Life Sciences, Bioinformatics, Molecular Biology +17

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

Da Wei Huang, Brad T. Sherman, Richard A. Lempicki · Nucleic Acids Research · 2008 · 14.7K citations · Full text

Life Sciences, Bioinformatics, Genomic Data Analysis +8

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

Brian J. Haas, Alexie Papanicolaou, Moran Yassour et al. · Nature Protocols · 2013 · 9.1K citations · Full text

Life Sciences, Bioinformatics, Molecular Biology +16

A scaling normalization method for differential expression analysis of RNA-seq data

Mark D. Robinson, Alicia Oshlack · Genome biology · 2010 · 8.6K citations · Full text

Life Sciences, Bioinformatics, Molecular Biology +16

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

Cole Trapnell, Davide Cacchiarelli, Jonna Grimsby et al. · Nature Biotechnology · 2014 · 7.8K citations · Full text

Life Sciences, Cell Biology, Developmental Biology +16