Table 2.

Genes most correlated with ΔPC1.EMT score^*

a.Top ten genes positively correlated with ΔPC1.EMT
Gene.Symbol	EntrezID	S	num.p	p.adj	Sum t statistics	Signature genes**
CD109	135228	869.79	5	<0.0001	75.05
AHNAK2	113146	837.41	6	<0.0001	79.32
GAS1	2619	806.50	6	<0.0001	76.57
PRKCDBP	112464	806.43	6	<0.0001	77.90
MEIS2	4212	779.02	6	<0.0001	77.16
NXN	64359	772.64	5	<0.0001	70.33
GFPT2	9945	727.95	6	<0.0001	72.26	PC1&EMT Up
OPMP22	5376	711.36	6	<0.0001	73.46	EMT Up
WWTR1	25937	692.29	6	<0.0001	72.07	PC1 Down
PTRF	284119	688.52	6	<0.0001	71.22	PC1&EMT Up

b.Top ten genes negatively correlated with ΔPC1.EMT
Gene.Symbol	EntrezID	S	num.p	p.adj	Sum t statistics	Signature genes**
CDX1	1044	860.61	6	<0.0001	−80.16	PC1 Down
CDX2	1045	845.27	6	<0.0001	−79.41
C10orf99	387695	767.33	5	<0.0001	−67.82	PC1 Down
DDC	1644	752.19	6	<0.0001	−73.57
GPA33	10223	726.29	6	<0.0001	−72.98	PC1 Down
FAM84A	151354	720.55	5	<0.0001	−67.43
NR1I2	8856	697.98	6	<0.0001	−70.24	PC1 Down
MYB	4602	630.56	6	<0.0001	−68.13	PC1 Down
C2orf89	129293	616.89	5	<0.0001	−60.62	PC1&EMT Down
EPHB2	2048	597.82	6	<0.0001	−66.42	PC1 Down

Note:

^*identified in a linear model on the six datasets

^**The genes correlated with ΔPC1.EMT that are overlapped with the PC1 and EMT signature genes (also see Supplementary Table S3).