Table 2. Largest fold change (FC) increase in gene expression during transition from iPSCs to NPCs.

gene	FPKM TIPS4iPSCs	FPKM TIPS4NPCs	FPKM TIPS4-C5iPSCs	FPKM TIPS4-C5NPCs	log2 FC	p-value	FDR
HOXA2	0	10.76	0	37.47	12.24	8.37E-05	1.73E-03
RP11-649A16.1	0	20.33	0	2.90	11.18	9.35E-04	1.33E-02
DCN	0.12	249.16	0	21.72	11.01	1.57E-03	2.05E-02
HOXA-AS2	0.00	15.01	0	2.03	10.74	5.61E-04	8.66E-03
HOXA3	0.00	10.53	0	5.14	10.61	1.33E-11	1.33E-09
NPR3	0.04	60.66	0	10.38	10.46	2.96E-03	3.42E-02
RGCC	0.00	2.37	0	8.93	10.14	4.39E-05	1.02E-03
PRRX1	0.22	244.97	0.04	39.91	10.02	2.51E-03	2.99E-02
DLX1	0.02	27.60	0.01	14.65	10.00	6.28E-12	6.59E-10
AC018730.3	0.00	2.73	0.00	7.11	9.94	6.59E-05	1.42E-03
NTRK2	0.01	8.74	0.04	41.85	9.86	1.83E-03	2.32E-02
RP11-266O8.1	0.00	3.71	0.00	5.45	9.84	1.70E-03	2.18E-02
PALMD	0.00	7.41	0.00	1.34	9.77	5.47E-04	8.45E-03
MKRN3	0.00	3.80	0.00	4.88	9.76	1.01E-08	5.77E-07
LUM	0.17	105.17	0.00	51.55	9.75	1.61E-07	7.08E-06
ABCC9	0.00	5.38	0.00	2.67	9.65	1.38E-08	7.50E-07
NR2F1	0.09	28.86	0.07	105.66	9.64	4.07E-08	2.00E-06
POU3F3	0.03	15.55	0.02	28.40	9.63	5.24E-22	2.04E-19
RP11-73C9.1	0.00	4.25	0.00	3.63	9.62	4.12E-03	4.49E-02
PDZRN4	0.00	15.07	0.01	1.02	9.57	3.97E-04	6.50E-03