FlowJo V10.1	Treestar, FlowJo, Ashland, Oregon	https://www.flowjo.com/solutions/flowjo/downloads
GraphPad Prism 7.02	GraphPad Software, California	https://www.graphpad.com/scientific-software/prism/
bcl2fastq 2.17.1.14	Illumina, California	https://support.illumina.com/sequencing/sequencing_software/bcl2fastq-conversion-software.html
Trimmomatic 0.36	Usadel Lab, RWTH Aachen University, Institute for Biology I	http://www.usadellab.org/cms/?page=trimmomatic
STAR 2.6.0	Alexander Dobin, Cold Spring Harbor Laboratory	https://github.com/alexdobin/STAR
HTSeq 0.7.1	Genome Biology Unit, EMBL Heidelberg	https://htseq.readthedocs.io/en/release_0.10.0/
edgeR 3.20.9	Bioconductor	https://bioconductor.org/packages/release/bioc/html/edgeR.html
Gorilla	Eden, Navon, Steinfeld, Lipson, Yakhini, 2009	http://cbl-gorilla.cs.technion.ac.il/
Other
Dulbecco's modified Eagle's medium (DMEM)	Fisher Scientific	MT‐10‐013‐CM
2‐Mercaptoethanol	Sigma‐Aldrich	M6250
Bio‐Rad protein assay dye reagent concentrate	Bio‐Rad Laboratories	500‐0006