Table II.

Summary of RNA-seq reads used in the analysis.

Sample	shCK18_1st	ShCK18_2nd	shCtrl_1st	shCtrl_2nd
Raw reads	75207886	83976994	73556828	73880306	76655503±4932995a
Clean reads	72139395	80470749	70542901	70836199	73497311±4700455
Paired-end reads	68071008	68521042	69757064	77558436	70976888±4445225
Total mapped	55639546	56175922	54402225	62167878	57096393±3461607
	(81.74%b)	(81.98%)	(77.99%)	(80.16%)
Total uniquely mapped	52472346	53397850	51511527	53943874	52831399±1069182
	(94.31%c)	(95.05%)	(94.69%)	(86.77%)
Splice reads	28437401	30330300	29524140	29318683
	(54.2%d)	(56.8%)	(57.32%)	(54.35%)

^aMean and standard deviation across the 4 samples.

^bPercentage of paired-end reads that were mapped to the genome.

^cPercentage of unique reads mapped out of the total mapped reads.

^dPercentage of uniquely mapped reads that were mapped to the splice site. CK18, cytokeratin 18.