CASTIN: a system for comprehensive analysis of cancer-stromal interactome

BMC Genomics

Table 2 Effect of mappable regions between human and mouse on estimated gene expression levels

Sample	Species	Cell line	Human^a	Mouse^b	Error (%)^c	Correlation^d
ExpID-112	Human	PANC-1	32194053	1821	0.0057	0.9992012
ExpID-114	Human	PK-8	34975755	1867	0.0053	0.9998013
ExpID-115	Human	PK-9	32170808	3484	0.0108	0.9997474
ExpID-116	Human	PK-45H	17278113	1331	0.0077	0.9998448
ExpID-117	Human	PK-45P	18986898	1243	0.0065	0.9997115
ExpID-118	Human	KLM-1	8950786	799	0.0089	0.999563
ExpID-119	Human	MiaPaca-2	2251017	1192	0.0530	0.9997128
ExpID-120	Human	Capan-1	2829135	2195	0.0776	0.9995722
ExpID-121	Human	HOPE	8930382	1110	0.0124	0.9996743
ExpID-128	Mouse	SVEC4-10	1052	18625926	0.0056	0.9987255
ExpID-129	Mouse	IP-1B	6508	19707229	0.0330	0.9988737

^aNumber of reads assigned to human by the CASTIN system
^bNumber of reads assigned to mouse by the CASTIN system
^cMisassignment rate (%)
^dPearson’s correlation coefficient between gene expression levels of human (mouse) cell lines using mappable regions of only human (mouse) and both human and mouse

ISSN: 1471-2164