Table 1 Fold-difference values for 88 genes in 55 patients with CFS: as a group, and in each of seven CFS subtypes

Gene symbol	mRNA accession no.	Taqman PCR assay ID‡	PCR*	Two-tail p value for PCR*	Subtype
Gene symbol	mRNA accession no.	Taqman PCR assay ID‡	PCR*	Two-tail p value for PCR*	1	2	3	4	5	6	7
ABCD4*	NM_020323	Hs00245340_m1	2.08	0.028	2.04		1.66	1.46		4.48	2.13
ACTR3	NM_005721	Hs00828586_m1	1.42	0.0042	3.77	2.44	1.93	0.93	1.86	0.87	1.76
AKAP10	NM_007202	Hs00183673_m1	1.54	0.0011	2.47	1.96	1.12	0.99	2.27	2.08	1.93
ANAPC11*	NM_016476	Hs00212858_m1	3.32	0.00033	4.33		2.26	2.02	5.57	3.27	4.26
ANAPC5	NM_016237	Hs00212120_m1	2.36	0.00016	3.88	3.64		1.69	3.56	3.88	0.83
APP†	NM_201413	Hs00169098_m1	2.5	4.33×10⁻⁹	2.45†	3.11†	1.73†	1.77†	3.94†	2.87†	4.16†
ARL4C	NM_005737	Hs00255039_s1	2.96	8.90×10⁻⁶			3.50	1.83	4.61	3.89	3.27
ARPC5	NM_005717	Hs00271722_m1	3.23	6.82×10⁻⁸	9.03	5.54	5.27	2.25	3.59	1.72	5.81
ARSD	NM_001669	Hs00534692_m1	1.98	0.001		2.30	2.08	1.27		1.85	2.67
ATP6V1C1	NM_001695	Hs00184625_m1	2.03	0.00029	3.29	3.06	4.74	1.18	2.68	2.47	1.94
BCOR	NM_017745	Hs00372369_m1	1.6	0.0098	1.43	1.53	0.84	0.95	3.66	1.96	1.74
BMP2K	NM_198892	Hs00214079_m1	1.3	0.014	0.77	1.41	1.17	0.99	1.48	1.54	0.85
BRMS1*	NM_015399	Hs00363036_m1	2.68	0.0014		3.16	1.00	1.37		4.35	2.57
CD2BP2*	NM_006110	Hs00272036_m1	1.8	5.35×10⁻⁶	2.19	1.76	2.37	1.34	1.63	2.78	3.45
CD47	NM_198793	Hs00179953_m1	2.2	0.00013	4.37	3.24	1.30	1.24	3.32	1.91	1.62
CEP350	NM_014810	Hs00402774_m1	2.02	0.0048	3.13	6.76	2.28	1.27	2.80	2.03	1.20
CITED2	NM_006079	Hs00366696_m1	2.39	4.45×10⁻⁶		2.64	0.75	2.16		2.87	2.23
CMTM6	NM_017801	Hs00215083_m1	1.41	0.012	3.84	2.48	2.38	0.84	1.99	0.89	1.63
CREBBP	NM_004380	Hs00231733_m1	1.43	0.016			0.93	1.29	1.50	1.21	2.68
CRK	NM_016823	Hs00180418_m1	2.51	1.11×10⁻⁵	3.65	4.39		1.79	2.31	3.63	3.59
CTBP1	NM_001328	Hs00179922_m1	1.45	0.062			0.86	0.94		1.35	2.49
CXCR4†	NM_003467	Hs00607978_s1	1.67	7.80×10⁻⁵			1.12	1.15		2.18†	2.41†
EBI2	NM_004951	Hs00270639_s1	3.44	0.0012		11.68	2.91	1.47	6.18	4.89	4.38
EGR1	NM_001955	Hs00152928_m1	2.82	0.015	1.18	7.71	0.94	1.73	2.01	2.97	1.92
EGR3	NM_004421	Hs00231780_m1	1.92	0.017	1.14		1.28	2.60	3.46		1.61
EIF2B4*	NM_172195	Hs00248984_m1	2.06	0.025			3.68	1.55		1.10	2.86
EIF3S10	NM_003750	Hs00186707_m1	3.58	0.0029			1.98	3.78	5.64	2.60	5.78
EIF4G1*	NM_198241	Hs00191933_m1	3.05	0.0033	3.25	8.57	1.50	1.83		3.71	5.84
EIF4G3	NM_003760	Hs00186804_m1	1.67	1.37×10⁻⁵		3.07	0.94	1.48	2.28	1.72	2.03
ETS1	NM_005238	Hs00901425_m1	2.11	1.00×10⁻⁵	2.79	3.51	0.98	1.54	1.64	2.00	2.77
FAM126B	NM_173822	Hs00545158_m1	1.64	0.0034	4.64	1.80	2.23	0.95	2.79	1.35	1.01
FNTA†	NM_002027	Hs00357739_m1	2.18	3.82×10⁻⁶	4.80†	3.32†	2.08†	1.49	2.48†	2.22†	1.49
GABARAPL1*	NM_031412	Hs00744468_s1	5.64	6.10×10⁻⁵	12.43	13.97	8.31	2.49	5.02	4.75	4.37
GABPA	NM_002031	Hs00745591_s1	8.06	3.00×10⁻⁴	6.59	23.28	15.56	2.92	3.36	9.27	3.44
GCN1L1	NM_006836	Hs00412445_m1	2.05	0.00052	2.03	2.00	1.54	1.38	2.41	4.26	3.22
GLTSCR2	NM_015710	Hs00414236_m1	1.24	0.026	1.97	1.85	1.14	0.77	1.30	1.41	2.20
GNAS	NM_080425	Hs00255603_m1	1.7	1.09×10⁻⁷	2.14	3.16	1.73	1.27	1.67	1.46	1.87
GSN*	NM_198252	Hs00609276_m1	2.93	0.00017	4.39	7.07	3.51	1.42	3.79	2.36	5.90
GTF2A2	NM_004492	Hs00362112_m1	1.79	0.03		1.42	5.57	1.16		1.65	1.90
HIF1A	NM_001530	Hs00153153_m1	0.81	0.016		1.24	1.35	0.86		0.59	1.07
IFNAR1	NM_000629	Hs00265057_m1	1.76	0.00073	3.90	3.22	2.21	1.05	1.64	2.90	1.54
IL10RA*	NM_001558	Hs00387004_m1	1.73	9.87×10⁻⁶	1.27	1.54	0.76	1.31	1.31	2.87	2.29
IL6R	NM_000565	Hs00794121_m1	1.19	0.06	5.42	3.11	3.32	2.94	3.10	3.03	4.08
IL6ST†	NM_002184	Hs00174360_m1	1.8	0.002	2.87†	1.52†	0.77	1.22	1.85†	1.71†	5.06†
IL7R	NM_002185	Hs00233682_m1	0.82	0.032	1.16	1.34	0.98	0.57	1.44	0.66	0.64
JAK1	NM_002227	Hs00233820_m1	1.91	1.86×10⁻⁸	1.73	3.19	1.26	1.40	1.94	2.12	2.40
KHSRP*	NM_003685	Hs00269352_m1	1.67	0.00026	1.43	2.13	1.25	1.17	1.89	2.49	2.73
MAPK9	NM_139070	Hs00177102_m1	1.4	0.045	1.74	2.36		1.08	2.34	2.12
METTL3	NM_019852	Hs00219820_m1	2.06	0.0001	3.94	2.95	0.76	1.38	1.97	3.14	2.11
MRPL23*	NM_021134	Hs00221699_m1	2.06	0.001	5.41	2.10	0.70	1.48	1.98	3.04	3.05
MRPS6	NM_032476	Hs00606808_m1	1.53	0.025		2.53	2.59	1.25	1.33	1.62	0.86
MRRF	NM_138777	Hs00751845_s1	8.91	0.0004	28.27	38.40	13.24	2.85	5.85	9.96	9.11
MSN*	NM_002444	Hs00792607_mH	1.33	0.0016	1.56	2.16	1.76	1.03	1.02	1.19	1.87
MTMR6	NM_004685	Hs00395064_m1	1.71	0.0025	5.07	2.10	2.38	1.23	2.17	0.59	1.89
NFKB1	NM_003998	Hs00231653_m1	1.59	4.04×10⁻⁵		2.26	1.14	1.34		1.60	2.56
NHLH1	NM_005589	Hs00271582_s1	11.51	7.00×10⁻⁴	3.87	47.19	20.19	5.34	3.90	15.62	5.32
NR1D2	NM_005126	Hs00233309_m1	2.44	0.00076	3.17	2.45	2.66	1.08		4.03	2.00
NTE*	NM_006702	Hs00198648_m1	1.7	0.04	4.40	8.11	0.97	0.94	1.55	1.33	2.24
NUFIP2	NM_020772	Hs00325168_m1	1.5	0.00036	2.05	1.94	0.74	1.02	2.44	1.97	1.45
PAPOLA	NM_032632	Hs00413685_m1	1.32	0.00194	1.90	1.93	1.41	0.88	1.99	1.03	1.40
PDCD2*	NM_002598	Hs00751277_sH	6.76	0.0096	26.46	24.28	17.55	2.84	3.78	8.81	5.38
PDCD6	NM_013232	Hs00737034_m1	1.74	0.00019	1.99	1.41	1.94	1.47	2.20	2.10	2.62
PEX16*	NM_004813	Hs00191337_m1	1.74	0.0034	2.58	2.46		1.15	2.08	2.13	2.33
PGM2	NM_018290	Hs00217619_m1	2.17	1.68×10⁻⁶	4.35	3.49	2.76	1.28	3.04	2.26	2.41
PIK3R1	NM_181523	Hs00236128_m1	0.68	0.025			1.61	0.50	0.25	0.46	1.33
PKN1*	NM_213560	Hs00177028_m1	1.56	9.40×10⁻⁵	2.30	2.11	0.95	1.14	1.97	1.73	2.60
POLR2G*	NM_002696	Hs00275738_m1	2.58	0.0078	3.38	3.04	2.79	1.23	2.56	8.07	2.63
PPP2R5C	NM_002719	Hs00604902_m1	1.38	0.022	2.59	1.63	1.03	0.95	2.15	1.85	1.14
PRKAA1	NM_006251	Hs01562315_m1	1.72	0.00052	3.27	1.98	1.43	1.36	2.23	1.68	0.97
PRKAR1A	NM_002734	Hs00267597_m1	2.63	2.91×10⁻⁸	4.81	5.67	4.73	1.64	2.69	1.54	4.06
PUM2	NM_015317	Hs00209677_m1	1.39	0.00064			1.35	1.32	1.29	1.36	1.81
RAP2C	NM_021183	Hs00221801_m1	2.1	0.015	4.97	2.07		1.11	2.24	3.09	0.53
REPIN1	NM_013400	Hs00274221_s1	3.62	6.00×10⁻⁶	3.86	7.29	2.66	1.67	1.93	4.76	2.19
RNF141	NM_16422	Hs00212656_m1	2.37	1.62×10⁻⁶	3.79	2.86	3.16	1.85	3.56	2.26	1.02
SELENBP1	NM_003944	Hs00187625_m1	1.92	0.002	3.87	1.86	1.28		2.48	2.31
SFXN1	NM_022754	Hs00224259_m1	1.6	0.022	4.86	1.89	1.57	1.21	3.50	0.96	1.41
SHPRH	NM_173082	Hs00542737_m1	1.77	0.05	0.92	2.85	0.98	2.21	1.71	1.23
SNAP23	NM_003825	Hs00187075_m1	2.02	0.00018	5.60	1.82	3.11	1.32	3.37	2.02	1.99
SORL1	NM_003105	Hs00268342_m1	1.54	4.10×10⁻⁸	1.31	1.89	1.48	1.26	1.51	1.74	3.09
SOS1	NM_005633	Hs00362308_m1	2.31	0.002	4.49	2.69	1.28	1.34	3.91	3.37	1.46
TAF11	NM_005643	Hs00194573_m1	1.87	0.05	2.32	4.97	0.86	1.23	2.71	1.93	2.60
TCF3	NM_003200	Hs00413032_m1	1.44	0.023			1.44	1.00		1.34	2.99
TDP1	NM_018319	Hs00217832_m1	1.67	0.0099	3.25	1.35	1.53	1.25	1.80	2.60	2.14
TNFRSF1A†	NM_001065	Hs00533560_m1	1.37	0.016		2.04†	1.13	1.32	0.72	1.48	1.46
UBTF	NM_014233	Hs00610729_g1	2.26	0.024		6.23	2.23	1.29		1.09	4.27
USP38	NM_032557	Hs00261419_m1	1.71	0.0021	4.07	2.08	0.96	1.10	2.03	2.05	2.07
WAPAL	NM_015045	Hs00386162_m1	1.69	0.027	3.27	3.64	3.35	1.07	2.00	1.16	0.91
WDR26	NM_025160	Hs00228535_m1	2.62	0.00012	5.62	6.11	2.84	1.80	2.33	1.20	3.19

For each subtype, genes with fold-difference values of ⩾1.5 up- or downregulated, as compared with normals, were noted and used in further analysis. Genes without values for the subtypes are those for which there was missing data for one or more subtypes.
*Kerr et al (2008).6
†Genes targeted by existing drugs, and those chronic fatigue syndrome subtypes in which there may be a rationale for a trial of a particular drug (see Results).
‡Assays were pre-designed by Applied Biosystems.