Table 1.

Top 10 genes downregulated or upregulated in U373MG cells following exposure to anti-cancer chemical compounds

ET-770 (the Compound 1a)				ET-770 Derivative (the Compound 3)				RM (the Compound 2a)
Downregulated Genes (n = 426)				Downregulated Genes (n = 417)				Downregulated Genes (n = 274)
Rank	Gene Symbol	Gene Name	Fold Change	Rank	Gene Symbol	Gene Name	Fold Change	Rank	Gene Symbol	Gene Name	Fold Change
1	SSBP2	single-stranded DNA binding protein 2	0.040	1	PTPRZ1	protein tyrosine phosphatase, receptor-type, Z polypeptide 1	0.043	1	PSD3	pleckstrin and Sec7 domain containing 3	0.068
2	ELMO1	engulfment and cell motility 1	0.049	2	SSBP2	single-stranded DNA binding protein 2	0.053	2	MST131	MSTP131	0.099
3	ODZ2	odz, odd Oz/ten-m homolog 2 (Drosophila)	0.053	3	NLGN1	neuroligin 1	0.055	3	PLCB1	phospholipase C, beta 1 (phosphoinositide-specific)	0.106
4	PRKD1	protein kinase D1	0.068	4	CD180	CD180 molecule	0.068	4	EXOC6B	exocyst complex component 6B	0.114
5	NLGN1	neuroligin 1	0.072	5	EPHA3	EPH receptor A3	0.073	5	ELMO1	engulfment and cell motility 1	0.125
6	MLLT3	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	0.072	6	PRKD1	protein kinase D1	0.075	6	DPYD	dihydropyrimidine dehydrogenase	0.125
7	SBF2	SET binding factor 2	0.088	7	PSD3	pleckstrin and Sec7 domain containing 3	0.080	7	DIAPH2	diaphanous homolog 2 (Drosophila)	0.128
8	EPHA3	EPH receptor A3	0.089	8	ELMO1	engulfment and cell motility 1	0.084	8	PDE1C	phosphodiesterase 1 C, calmodulin-dependent 70 kDa	0.133
9	PSD3	pleckstrin and Sec7 domain containing 3	0.089	9	ODZ2	odz, odd Oz/ten-m homolog 2 (Drosophila)	0.084	9	FAM172A	family with sequence similarity 172, member A	0.138
10	ERC1	ELKS/RAB6-interacting/CAST family member 1	0.094	10	CASK	calcium/calmodulin-dependent serine protein kinase (MAGUK family)	0.094	10	FRMD5	FERM domain containing 5	0.139
Upregulated Genes (n = 45)				Upregulated Genes (n = 84)				Upregulated Genes (n = 9)
Rank	Gene Symbol	Gene Name	Fold Change	Rank	Gene Symbol	Gene Name	Fold Change	Rank	Gene Symbol	Gene Name	Fold Change
1	OSR2	odd-skipped related 2 (Drosophila)	6.10	1	AKAP5	A kinase (PRKA) anchor protein 5	6.42	1	DENND2C	DENN/MADD domain containing 2 C	4.28
2	HBEGF	heparin-binding EGF-like growth factor	5.12	2	SLC25A19	solute carrier family 25 (mitochondrial thiamine pyrophosphate carrier), member 19	4.90	2	ZNF844	zinc finger protein 844	4.07
3	AKAP5	A kinase (PRKA) anchor protein 5	4.89	3	OSR2	odd-skipped related 2 (Drosophila)	4.86	3	HBEGF	heparin-binding EGF-like growth factor	4.02
4	CSNK1G1	casein kinase 1, gamma 1	4.69	4	ZNF844	zinc finger protein 844	4.79	4	OSR2	odd-skipped related 2 (Drosophila)	3.52
5	IL1A	interleukin 1, alpha	4.66	5	HBEGF	heparin-binding EGF-like growth factor	4.63	5	LRRTM2	leucine rich repeat transmembrane neuronal 2	3.44
6	GABRQ	gamma-aminobutyric acid (GABA) receptor, theta	4.28	6	CDC25A	cell division cycle 25 homolog A (S. pombe)	4.38	6	TSPYL2	TSPY-like 2	3.28
7	ZNF844	zinc finger protein844	4.03	7	ZNF684	zinc finger protein 684	4.24	7	TLCD1	TLC domain containing 1	3.10
8	E2F2	E2F transcription factor 2	3.82	8	TLCD1	TLC domain containing 1	4.10	8	RHEBL1	Ras homolog enriched in brain like 1	3.08
9	IL17RB	interleukin 17 receptor B	3.79	9	GPATCH4	G patch domain containing 4	4.06	9	GABRQ	gamma-aminobutyric acid (GABA) receptor, theta	3.00
10	B7H6	B7 homolog 6	3.75	10	CHAC2	ChaC, cation transport regulator homolog 2 (E. coli)	4.01

The genome-wide gene expression profile was studied on Human Gene 1.0 ST array in U373MG cells following a 24 hour-exposure to the vehicle (DMSO) or to the three chemical compounds (Figure 1) individually at the concentration of IC₅₀. The fold changes greater than 3 or smaller than 0.3333, calculated by the expression levels in the compound-treated cells divided by those in the vehicle-treated cells, were considered as substantial upregulation or downregulation. Top ten of them are listed with gene symbol, gene name, and fold change.