Table 1.

Genes differentially expressed between human induced pluripotent stem cells (hiPSCs) generated with three reprogramming methods and parental human neonatal foreskin BJ fibroblasts.

Gene Symbol	Probe Name	Regulation	LogFc Ep vs. BJ	LogFc R vs. BJ	LogFc S vs. BJ
RIN2	A_24_P305570	down	−6.10	−5.79	−6.33
RIN2	A_23_P91379	down	−5.33	−5.00	−6.02
RIN2	A_23_P120572	down	−4.10	−4.90	−4.84
LMNA	A_23_P34835	down	−4.32	−4.45	−4.02
LMNA	A_24_P162718	down	−4.32	−4.60	−4.01
EMILIN1	A_23_P165848	down	−5.35	−5.28	−5.39
TMEM173	A_23_P61371	down	−7.80	−7.84	−7.93
COL3A1	A_23_P142533	down	−9.50	−8.48	−9.97
COL3A1	A_24_P402242	down	−8.65	−7.81	−9.61
COL3A1	A_24_P935491	down	−9.04	−8.09	−9.46
FAP	A_23_P56746	down	−12.49	−12.37	−13.23
FGF5	A_24_P401855	down	−6.43	−6.25	−6.53
FGF5	A_23_P212800	down	−8.96	−8.97	−8.98
GBP3	A_23_P51487	down	−10.10	−10.26	−10.38
GBP3	A_24_P370702	down	−8.60	−9.34	−9.31
LYST	A_23_P354074	down	−7.05	−6.59	−6.24
ANPEP	A_23_P88626	down	−8.20	−8.59	−8.20
POU5F1	A_24_P144601	up	11.66	11.67	11.40
POU5F1	A_23_P59138	up	11.29	11.52	11.36
POU5F1	A_32_P132563	up	10.57	10.70	10.40
POU5F1	A_24_P214841	up	11.28	11.34	11.11
CDH1	A_23_P206359	up	11.04	11.43	11.12
LEFTY1	A_23_P160336	up	5.49	5.85	5.15
TDGF1	A_32_P135985	up	7.98	8.29	7.98
TDGF1	A_23_P366376	up	12.70	12.94	12.67
SALL4	A_23_P109072	up	7.48	7.13	7.62
RAB25	A_23_P115091	up	7.64	7.32	7.58
PTPN6	A_23_P162486	up	3.80	3.56	3.91
EPHA1	A_23_P157333	up	8.59	8.39	8.41
SCNN1A	A_23_P128323	up	5.64	5.34	5.57
SOX2	A_23_P401055	up	13.09	12.99	13.71
SOX2	A_24_P379969	up	9.93	9.85	10.22
NANOG	A_23_P204640	up	9.19	9.78	9.28
TERT	A_23_P110851	up	5.14	5.49	5.01
DNMT3B	A_23_P28953	up	7.89	8.30	8.00

Logarithmic Fold Change (LogFc) variation; Ep: episomal vector-based reprogramming; R: retroviral vector-based reprogramming; S: Sendai virus vector-based reprogramming.