A genome-wide CRISPR-Cas9 knockout screen identifies essential and growth-restricting genes in human trophoblast stem cells

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love, Wolfgang Huber, Simon Anders · Genome biology · 2014 · 94.7K citations · Full text

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin, Carrie Davis, Felix Schlesinger et al. · Bioinformatics · 2012 · 53.2K citations · Full text

BEDTools: a flexible suite of utilities for comparing genomic features

Aaron R. Quinlan, Ira M. Hall · Bioinformatics · 2010 · 28.9K citations · Full text

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

Sven Heinz, Christopher Benner, Nathanael J. Spann et al. · Molecular Cell · 2010 · 14K citations · Full text

Transcriptional Regulation, B Cell Identities, Cell Lineage +9

deepTools2: a next generation web server for deep-sequencing data analysis

Fidel Ramírez, Devon Ryan, Björn Grüning et al. · Nucleic Acids Research · 2016 · 8.5K citations · Full text