Table 3.

Common genes, responding to irradiation in U87 and HEL cell lines and U87 xenografts

Access. no.	Group and name	U87-C			HEL-C			U87-X			Comments
		1 Gy	3 Gy	10 Gy	1 Gy	3 Gy	10 Gy	1 Gy	3 Gy	10 Gy
1. Homeostasis/self defense
AA464246	HLA-C	1.28	1.20	0.51	0.98	0.91	2.65	1.71	1.74	1.53	↓ D
AA434117	HLA-B-assot. G9a	0.89	0.57	0.51	0.72	0.78	0.61				$
AA670408	β2-Microglobulin	1.02	2.14	0.53	1.43	1.82	5.78	1.80	1.93	1.24	$ * D
AA778663	4-1BB ligand	1.67	1.38	0.35				4.43	10.70	12.1	* A
AA136271	CD58 (LFA3)	1.06	0.89	0.20	0.51	0.90	0.59				$
R77293	ICAM1	1.22	0.99	0.42				2.00	1.47	2.46	↓ B
AA130584	CEACAM5	1.77	1.28	1.88				3.22	18.63	3.64	* A
N51018	Biglycan	1.33	1.22	1.64				0.47	0.74	1.69	* E
AA399674	SPRR2C	0.85	0.89	0.43	0.82	0.84	1.79				↓
T49657	K+ channel TASK	2.09	1.61	2.36	1.60	1.89	1.68	4.62	3.90	5.36	$ * A
AA069770	K+ channel KCNB1	0.56	1.53	1.59				10.07	7.12	6.79	↓ C
H14808	Na+/K+ ATPase β2	1.46	0.93	2.11				3.07	2.43	6.45	* A
H24316	Aquaporin	1.03	1.63	1.44				24.56	12.25	5.84	* C
H57136	PLM Cl− channel	1.23	1.80	1.60	0.87	0.84	0.53	2.72	4.17	4.44	↓ * C
AA402891	Transporter ENT2	1.08	1.19	1.60				6.07	36.08	2.61	* C
AA191488	Cu2+ uptake protein CTR1	1.72	1.00	2.46	2.42	3.20	4.39	1.05	1.27	1.80	$ * E
AA490459	Transcobalamin II	0.76	0.61	0.55	0.47	0.83	0.31				$
H72723	MT1B	1.12	0.61	0.57				2.04	2.93	5.46	↓ D
H23187	Carbonic anhydrase II	0.84	1.10	0.59				4.41	2.50	2.26	↓B
2. Cell–cell communications/signaling
R56211	PDGFRβ	1.02	1.12	1.87	0.92	1.37	1.85				$
AA486393	IL-10 receptor β	1.72	1.19	1.60				6.12	3.84	3.78	* A
AA485226	Vitamin D receptor	2.31	0.69	0.64				6.54	9.35	3.34	* A
H54023	MIR-10 (LILRB2)	1.71	1.00	1.35				0.48	0.63	1.98	↓ E
AA400973	Lipocalin 2	1.16	0.56	0.49	0.68	0.62	0.53				$
AA485922	Copine I	1.65	1.06	1.08				3.84	3.74	4.24	* A
R73545	Flotillin 2	1.18	0.94	0.61	1.11	1.17	1.89				↓
N20203	BMP receptor II	0.60	0.79	0.97				5.54	2.88	2.00	↓ B
AA450062	BMP, placental	1.45	1.49	1.60	1.35	0.82	1.62				$
AA489383	BMP 2	1.71	1.61	1.80	0.61	2.14	1.61	1.77	1.69	1.06	$ * F
T55558	CSF 1	0.92	1.29	0.56	0.83	0.61	0.52				$
AA486072	RANTES	1.14	0.67	0.42				4.92	2.79	3.74	↓ A
R43320	G-protein GNAO1	1.79	1.05	1.83				0.61	0.82	1.65	* E
R56046	G-protein GNAZ	0.74	0.87	0.49	0.85	0.93	1.77	0.73	0.67	1.75	↓ E
AA458785	Guanylate cyclase β1	1.74	1.45	1.86				3.89	3.75	4.07	* A
R37953	Adenylyl cyclase associated protein	1.31	1.23	0.59	1.04	1.04	2.60				↓
N28497	PP2A (PPP2R1B)	1.16	1.35	2.00	0.78	0.77	0.33	7.81	6.84	5.31	↓ * B
H15718	Protein kinase AXL	0.76	0.59	0.80	0.48	0.57	0.52				$
AA453789	Protein kinase 7	0.94	1.19	0.60	0.69	1.04	0.53				$
R59598	Protein kinase Syk	0.56	0.64	0.48	0.54	0.61	0.76				$
R80779	Protein kinase MLK-3	1.15	1.50	1.66				10.99	6.73	4.43	* B
AA890663	Protein kinase PAK1	0.64	1.95	1.80	0.90	1.06	0.56				↓
N52958	SLP-76	1.38	2.21	1.72				1.07	1.32	1.80	*
H73724	CDK6	1.76	1.53	2.08				0.47	0.81	2.01	*E
AA464731	Calgizzarin	1.01	0.96	0.33	1.06	1.07	2.35				↓
N63940	Acetylcholinesterase	0.83	0.61	0.87	0.65	0.62	0.84				$
3. Cytoskeleton/motility
AA703141	Protein 4.1 (EBP41)	0.60	0.63	0.64	0.61	0.81	1.34				$
AA877166	Myosin light chain 2	0.83	1.01	0.57	0.83	0.86	0.49				$
AA504625	Kinesin heavy chain	0.62	1.34	0.59				4.42	12.29	0.25	* C
AA868929	Troponin T1	1.01	0.53	0.27				0.18	0.12	1.98	*
R44290	β-Actin (ACTB)	1.13	0.60	0.55	1.32	1.47	3.48	1.79	1.93	1.43	↓ D
AA634006	Actin α-2 (ACTSA)	1.51	0.80	0.51	1.01	1.30	3.16	1.55	1.55	1.52	↓ D
AA629189	Keratin 4 (KRT4)	1.08	1.08	1.62	1.02	1.32	0.39				↓
4. RNA synthesis/modifications
H99588	LAF4	3.15	1.23	2.62	3.62	2.70	4.83	0.59	0.82	1.65	$ * E
N47099	SMAD2	1.12	1.64	2.04	0.94	1.90	0.55				$
AA478268	CTBP 1	1.17	1.63	1.44				3.99	5.34	2.77	* B
AA394127	NF-AT3	1.24	0.96	0.36	1.15	0.90	2.19				↓
AA258001	RELB	1.02	1.10	0.59				5.12	7.57	2.33	↓ C
AA253434	Transcription factor HSF2	1.08	0.60	1.06				5.09	2.64	1.86	↓ C
AA457155	ZNF212	0.49	0.68	1.32	2.02	0.87	2.45				↓
R02346	U1 snRNP 70	2.57	1.32	2.59	1.33	1.51	1.98	6.29	5.46	8.60	$* A
AA496879	RNP S1	1.58	1.70	2.43	1.18	1.02	0.47	7.72	7.05	4.26	$* B
N26026	Gemin 2 (SIP1)	2.31	2.94	3.88				5.00	4.38	3.32	* A
AA126911	hnRNP A1	0.99	0.57	0.39	1.65	1.81	4.53				↓
AA431440	hnRNP-E2	0.81	0.64	0.61	0.83	1.09	2.01				↓
T60163	RNase L	1.13	1.09	1.64				6.84	8.45	3.32	* B
5. Protein synthesis/modifications
R43973	EF1γ	2.23	1.22	0.54	1.69	1.30	3.83				$
R54097	elF-2b	0.91	0.63	0.50	0.55	0.98	2.15				↓
AA873351	RP L35a	0.97	2.30	1.61	0.93	0.91	2.28	1.91	1.67	1.34	$* D
T69468	RPS4Y	0.51	1.01	0.89	1.95	1.87	3.26				↓
AA490011	RPL38	1.43	0.92	0.22	0.99	1.40	2.97				↓
T67270	RPL10	1.97	1.29	0.61	1.22	1.31	2.75				↓
AA464743	RPL21	1.09	1.31	0.52	0.87	0.91	1.73				↓
AA680244	RPL11	1.01	1.18	0.25	0.84	1.18	2.94				↓
W96450	aa-tRNA synthetase FARSL	1.10	1.67	1.46				1.97	1.84	1.36	* F
AA599158	aa-tRNA synthetase EPRS	0.97	0.89	0.56				2.20	1.84	1.31	↓ F
AA664241	α-NAC	0.60	0.83	2.07	0.89	1.09	1.68				$
AA424786	Golgin-95	0.90	0.99	0.57				10.02	19.14	2.95	↓ C
AA457114	Protein B94	1.85	1.14	1.95				4.01	2.33	6.45	* D
AA504455	LDLC	1.71	1.92	1.62				2.43	1.88	1.50	* F
R78585	Calumenin	0.99	1.02	0.53	1.02	1.26	2.89	1.06	1.44	1.14	↓D
T71316	ADP-ribosylation factor 4	1.25	0.79	0.48	0.94	1.05	3.12				↓
AA455301	Protein GPAA1	0.58	0.58	0.93				2.43	2.11	1.57	↓ B
N78843	CYP-33 (PPIE)	1.79	1.47	1.69				8.57	5.27	3.85	* C
H98666	PCOLN3	0.80	0.60	0.50	0.78	0.61	0.60				$
AA430524	ACE	1.17	1.70	1.99				1.78	2.85	1.66	* A
AA410517	Serpin PTI	0.91	1.47	1.79	1.31	1.60	2.72				$
W61361	Serpin CAP2	1.24	1.76	1.27				6.67	8.93	3.52	* C
AA430512	Serpin CAP3	1.22	1.53	1.69				6.45	5.37	4.20	* B
AA402874	Protective protein	1.15	0.76	0.55				1.20	1.21	1.42	↓ D
6 & 8. Metabolism/energy/oxidative stress
N33331	PPARδ	1.15	1.62	1.45				34.35	50.10	95.30	* C
AA465366	Leukotriene A4 hydrolase	1.69	2.28	0.85				4.58	7.54	3.17	* C
R55046	MpV17 (peroxisome)	0.75	0.60	0.57	1.30	1.69	2.18				↓
W49667	Fatty acid desaturase	1.08	0.43	1.08				4.36	4.38	3.79	↓ A
W95082	11β-hydroxysteroid dehydrogenase	1.07	0.80	0.45	0.45	0.82	0.44	16.25	5.88	3.48	$ B
T73294	P450 reductase	1.78	1.05	2.01				0.80	0.71	2.69	*
AA708298	H+ ATP synthase	1.20	1.02	0.49	1.11	1.62	5.38	1.85	1.46	1.30	↓D
H61243	Uncoupling protein 2	0.93	0.82	0.53				1.07	0.93	1.81	↓
W96179	Glutamate-cysteine ligase	2.67	2.03	3.18				6.69	4.97	4.54	* A
AA463458	Glutathione synthetase	0.94	0.73	0.32				1.73	0.94	1.43	↓
AA290738	GSTM4	1.10	0.93	0.46				4.34	2.92	2.00	↓ B
R52548	SOD-1	0.92	0.84	0.60				6.58	3.01	2.12	↓ B
R39463	Aldolase C	0.98	0.90	0.58	0.62	0.77	0.47				$
H05914	LDHA	0.84	1.27	0.59	1.15	1.12	2.68				↓
AA629567	HSP73	1.07	0.86	0.49	1.00	1.39	2.40				↓
7. DNA metabolism/chromatin structure
H15112	Uracil-DNA glycosylase 1	0.45	0.58	1.64	0.85	1.36	1.70				$
N26769	DNA glycosylase (MPG)	0.89	0.94	0.55				5.88	3.06	1.70	↓B
AA608557	XPE1 (DDB1)	1.61	1.16	1.98				0.68	0.77	1.76	* E
AA035095	BCR protein 1	0.99	0.74	0.52	0.65	0.93	0.54				$
AA460927	Translin	0.53	1.29	2.49	0.99	1.51	2.37				$
AA442991	Prothymosin α (PTMA)	2.56	2.01	1.06	2.19	1.61	2.66				$
AA456077	Centromere protein p27	0.86	0.72	0.44	0.62	0.88	0.41				$
R56871	Chromatin assembly factor-I	0.69	0.98	1.82	0.94	0.30	0.60				↓
9. Unclassified
AA683321	PAR-5	1.72	1.27	1.38	2.26	2.62	8.38	0.44	0.72	1.61	↓ $ E
R06254	Protein D54	1.62	0.92	1.68	1.26	1.29	1.87				$
AA406064	BPY1	1.78	1.86	2.12				1.68	2.57	1.02	* D
AA448289	Protein D123	1.14	1.05	2.08				9.12	10.66	9.06	* C
N34095	FEZ2	1.14	1.55	1.69				2.86	3.20	3.70	* A
R87497	2.19 gene	1.85	2.70	1.71				4.32	3.50	5.08	* A
AA452826	Purkinje cell protein 4	0.60	0.80	0.59				5.26	3.82	3.32	↓ D

Genes that responded to irradiation in both U87 and HEL cell lines in vitro or U87 grown in cell culture (U87-C) or transplanted in xenografts (U87-X) are shown. Genes distributed according cell functions. Numbers are average ratios of significant up- or down-regulation for each dose tested at 5 h after irradiation. $, consistent up- or down-regulation in both U87 and HEL in vitro; 

^*, consistent up- or down-regulation in both U87 in vitro and U87 xenografts; ⇅, opposite response in either U87/HEL or U87-C/U87-X cell types; A–F, cluster of expression in U87 xenografts (see Fig. 1).