Table 1. Top differentially expressed genes (fold change; FC) that decrease during differentiation into NPCs.

Gene	FPKM iPSCs	FPKM NPCs	FPKM iPSCs	FPKM NPCs	log2 FC	p-value	FDR
	TIPS4	TIPS4	TIPS4-C5	TIPS4-C5	NPCs/iPSCs
RP11-256I9.2	2100.54	0.00	126.91	0.00	−17.77	9.31E-39	1.49E-35
RP11-132A1.3	42.89	0.00	39.36	0.00	−13.01	1.42E-24	6.59E-22
ESRG	439.88	0.08	374.93	0.03	−12.82	2.71E-56	9.76E-53
RP11-1144P22.1	192.17	0.05	126.90	0.00	−12.43	1.51E-38	1.97E-35
RP11-277P12.10	39.44	0.00	13.94	0.00	−12.38	1.71E-08	9.11E-07
PRDM14	22.11	0.00	19.11	0.00	−12.01	3.22E-31	2.32E-28
CTD-2142D14.1	21.65	0.00	15.39	0.00	−11.86	1.60E-11	1.57E-09
TRIML2	13.32	0.00	19.97	0.00	−11.70	6.21E-11	5.54E-09
FOXH1	81.94	0.03	34.75	0.00	−11.70	1.91E-31	1.44E-28
CTD-2501M5.1	20.49	0.00	11.22	0.00	−11.63	1.02E-13	1.47E-11
LINC00678	184.49	0.05	111.91	0.04	−11.60	3.09E-37	3.71E-34
TDGF1	541.72	0.31	422.70	0.03	−11.43	4.40E-50	1.27E-46
VRTN	41.60	0.01	29.62	0.01	−11.33	1.65E-39	2.97E-36
RP1-46F2.2	11.17	0.00	9.79	0.00	−11.03	2.64E-04	4.55E-03
DPEP3	9.15	0.00	8.92	0.00	−10.82	2.46E-17	5.62E-15
ZFP42	87.65	0.07	56.90	0.00	−10.81	1.32E-38	1.90E-35
RP11-469A15.2	10.63	0.00	7.11	0.00	−10.79	6.98E-06	2.00E-04
CTD-2306M5.1	8.55	0.00	7.92	0.00	−10.69	3.14E-06	9.98E-05
DAZL	8.51	0.00	7.19	0.00	−10.62	2.17E-12	2.58E-10
CCL26	6.35	0.00	8.76	0.00	−10.56	5.17E-05	1.16E-03