Key resources table.

Reagent type or resource	Designation	Source or reference	Identifiers	Additional information
RNA-seq data		(Abruzzi et al., 2017)	GSE77451
RNA-seq data		(Wang et al., 2016)	GSE79916
Software, algorithm	Morpheus	N/A		https://software.broadinstitute.org/morpheus/
Software, algorithm	BoxPlotR	(Spitzer et al., 2014)		http://shiny.chemgrid.org/boxplotr/
Software, algorithm	STAR 2.5.3a	(Dobin et al., 2013)		https://github.com/alexdobin/STAR
Software, algorithm	Samtools 1.4.1	(Li, 2011)		http://samtools.sourceforge.net/
Software, algorithm	Bedtools 2.26.0	N/A		http://bedtools.readthedocs.io/en/latest/
Software, algorithm	JUM 1.3.7	(Wang and Rio, 2017b)		https://github.com/qqwang-berkeley/JUM (copy archived at https://github.com/elifesciences-publications/JUM)
Software, algorithm	ImageJ 1.50i	(Schneider et al., 2012)		https://imagej.nih.gov/ij/
Software, algorithm	David Bioinformatics Resources 6.8	(Huang et al., 2009b)		https://david.ncifcrf.gov/home.jsp
Software, algorithm	IGV 2.3.91	(Robinson et al., 2011; Thorvaldsdóttir et al., 2013)		http://software.broadinstitute.org/software/igv/