Table 2

CFS/ME-associated genes and transcription factors in patients with CFS/ME, Q-fever-associated CFS/ME and endogenous depression

Gene symbol	GenBank accession number	Taqman assay ID‡	CFS/ME (n=111)		Q-CFS/ME (n=6)		Endogenous depression (n=14)
Gene symbol	GenBank accession number	Taqman assay ID‡	Fold difference	p Value	Fold difference	p Value	Fold difference	p Value
ABCD4*	NM_020323	Hs00245340_m1	2.21	0.01	3.01	0.031	1.42	0.26
ACTR3	NM_005721	Hs00828586_m1	13.53	0.0029	17.77	0.04	1.22	0.72
AKAP10	NM_007202	Hs00183673_m1	5.22	0.01	6.28	0.031	1.16	0.38
ANAPC11*	NM_016476	Hs00212858_m1	2.57	0.006	1.47	0.002	1.11	0.37
ANAPC5	NM_016237	Hs00212120_m1	2.04	0.002	1.07	0.045	1.32	0.392
APP	NM_201413	Hs00169098_m1	1.42	0.00003	0.23	0.001	1.59	0.021
ARL4C	NM_005737	Hs00255039_s1	7.15	0.00001	5.25	0.0023	1.18	0.76
ARPC5	NM_005717	Hs00271722_m1	3.71	0.000008	4.26	0.0047	1.46	0.49
ARSD	NM_001669	Hs00534692_m1	1.62	0.001	1.65	0.05	1.07	0.133
ATP6V1C1	NM_001695	Hs00184625_m1	2.66	0.0009	2.03	0.021	1.23	0.75
BCOR	NM_017745	Hs00372369_m1	1.90	0.0045	2.37	0.007	1.09	0.28
BMP2K	NM_198892	Hs00214079_m1	8.05	0.01	14.27	0.04	1.18	0.125
BRMS1*	NM_015399	Hs00363036_m1	3.08	0.0002	2.43	0.037	1.28	0.194
CD2BP2*	NM_006110	Hs00272036_m1	4.12	0.000084	5.15	0.001	1.44	0.334
CD47	NM_198793	Hs00179953_m1	3.38	0.0007	2.60	0.002	1.07	0.125
CEP350	NM_014810	Hs00402774_m1	3.85	0.001	6.49	0.01	1.36	0.803
CITED2	NM_006079	Hs00366696_m1	5.28	0.000031	6.21	0.049	1.33	0.172
CMTM6	NM_017801	Hs00215083_m1	3.61	0.014	6.31	0.046	1.21	0.405
CREBBP	NM_004380	Hs00231733_m1	7.02	0.02	9.82	0.025	1.61	0.021
CRK	NM_016823	Hs00180418_m1	1.98	0.000044	1.29	0.0003	1.40	0.683
CTBP1	NM_001328	Hs00179922_m1	5.13	0.071	4.16	0.02	1.45	0.134
CXCR4	NM_003467	Hs00607978_s1	13.46	0.00009	28.13	0.007	1.05	0.128
EBI2	NM_004951	Hs00270639_s1	5.99	0.002	26.16	0.011	0.88	0.687
EGR1	NM_001955	Hs00152928_m1	1.69	0.03	0.34	0.026	1.33	0.65
EGR3	NM_004421	Hs00231780_m1	2.11	0.017	–	–	–	–
EIF2B4*	NM_172195	Hs00248984_m1	2.87	0.0026	1.13	0.048	0.58	0.739
EIF3S10	NM_003750	Hs00186707_m1	2.10	0.0034	1.55	0.067	1.29	0.295
EIF4G1*	NM_198241	Hs00191933_m1	2.42	0.0007	0.34	0.035	1.16	0.165
EIF4G3	NM_003760	Hs00186804_m1	2.17	0.00012	3.22	0.0079	1.35	0.83
ETS1	NM_005238	Hs00901425_m1	30.82	0.0008	37.57	0.055	1.09	0.761
FAM126B	NM_173822	Hs00545158_m1	3.19	0.01	5.52	0.03	1.26	0.906
FNTA	NM_002027	Hs00357739_m1	3.86	0.0007	2.80	0.001	1.24	0.254
GABARAPL1*	NM_031412	Hs00744468_s1	5.27	0.00042	1.83	0.008	1.47	0.525
GABPA	NM_002031	Hs00745591_s1	15.40	0.0001	1.91	0.027	1.12	0.716
GCN1L1	NM_006836	Hs00412445_m1	1.18	0.00072	0.70	0.0015	1.07	0.443
GLTSCR2	NM_015710	Hs00414236_m1	5.49	0.0016	5.03	0.038	1.17	0.807
GNAS	NM_080425	Hs00255603_m1	2.37	0.000045	1.56	0.0021	1.56	0.004
GSN*	NM_198252	Hs00609276_m1	2.56	0.00037	2.40	0.01	1.11	0.312
GTF2A2	NM_004492	Hs00362112_m1	1.08	0.002	0.52	0.039	1.13	0.375
HIF1A	NM_001530	Hs00153153_m1	0.66	0.019	2.67	0.012	1.28	0.255
IFNAR1	NM_000629	Hs00265057_m1	3.30	0.00025	3.02	0.009	1.32	0.853
IL10RA*	NM_001558	Hs00387004_m1	1.34	9.87E-06	–	–	–	–
IL6R	NM_000565	Hs00794121_m1	2.49	0.06	–	–	–	–
IL6ST	NM_002184	Hs00174360_m1	3.34	0.0011	1.67	0.034	1.36	0.617
IL7R	NM_002185	Hs00233682_m1	0.52	0.032	–	–	–	–
JAK1	NM_002227	Hs00233820_m1	12.73	0.0000008	15.51	0.04	1.05	0.623
KHSRP*	NM_003685	Hs00269352_m1	1.82	0.00026	0.35	0.0016	1.22	0.55
MAPK9	NM_139070	Hs00177102_m1	1.58	0.045	1.29	0.05	0.95	0.213
METTL3	NM_019852	Hs00219820_m1	1.30	0.0001	0.77	0.01	1.17	0.215
MRPL23*	NM_021134	Hs00221699_m1	2.62	0.001	0.80	0.029	1.36	0.79
MRPS6	NM_032476	Hs00606808_m1	2.75	0.025	1.87	0.014	1.34	0.451
MRRF	NM_138777	Hs00751845_s1	8.23	0.0004	2.84	0.03	1.22	0.25
MSN†	NM_002444	Hs00792607_mH	4.85	0.0016	7.49	0.002	1.35	0.962
MTMR6	NM_004685	Hs00395064_m1	6.60	0.0025	4.12	0.048	1.12	0.15
NFKB1	NM_003998	Hs00231653_m1	5.01	0.00027	5.01	0.001	1.28	0.41
NHLH1	NM_005589	Hs00271582_s1	58.31	7.00E-04	–	–	–	–
NR1D2	NM_005126	Hs00233309_m1	2.06	0.00016	1.56	0.0006	0.73	0.96
NTE*	NM_006702	Hs00198648_m1	2.92	0.001	7.34	0.02	1.49	0.579
NUFIP2	NM_020772	Hs00325168_m1	2.37	0.001	2.00	0.046	1.31	0.929
PAPOLA	NM_032632	Hs00413685_m1	0.62	0.00021	0.45	0.001	1.37	0.672
PDCD2*	NM_002598	Hs00751277_sH	5.38	0.008	–	–	1.62	0.029
PDCD6	NM_013232	Hs00737034_m1	2.54	0.0002	2.19	0.01	1.69	0.015
PEX16*	NM_004813	Hs00191337_m1	3.98	0.0061	3.32	0.028	0.68	0.776
PGM2	NM_018290	Hs00217619_m1	4.28	0.000001	3.50	0.0014	1.07	0.308
PIK3R1	NM_181523	Hs00236128_m1	4.04	0.005	2.60	0.01	1.14	0.208
PKN1*	NM_213560	Hs00177028_m1	4.58	0.0003	3.95	0.01	1.03	0.887
POLR2G*	NM_002696	Hs00275738_m1	2.71	0.001	1.00	0.039	0.77	0.916
PPP2R5C	NM_002719	Hs00604902_m1	4.65	0.013	8.21	0.045	1.30	0.906
PRKAA1	NM_006251	Hs01562315_m1	4.19	0.0002	2.18	0.001	1.29	0.56
PRKAR1A	NM_002734	Hs00267597_m1	3.55	0.0000004	2.31	0.0001	1.23	0.83
PUM2	NM_015317	Hs00209677_m1	2.73	0.00078	2.33	0.002	1.35	0.82
RAP2C	NM_021183	Hs00221801_m1	6.74	0.013	4.37	0.043	1.46	0.69
REPIN1	NM_013400	Hs00274221_s1	4.51	0.00001	2.13	0.01	1.26	0.41
RNF141	NM_16422	Hs00212656_m1	6.49	0.00000079	7.44	0.0003	1.19	0.411
SELENBP1	NM_003944	Hs00187625_m1	10.57	0.001	7.00	0.02	1.06	0.104
SFXN1	NM_022754	Hs00224259_m1	1.69	0.041	0.69	0.037	1.00	0.24
SHPRH	NM_173082	Hs00542737_m1	0.56	0.02	0.69	0.03	1.00	0.303
SNAP23	NM_003825	Hs00187075_m1	7.00	0.0006	3.17	0.01	1.10	0.132
SORL1	NM_003105	Hs00268342_m1	1.67	4.10E-08	–	–	–	–
SOS1	NM_005633	Hs00362308_m1	1.02	0.001	1.02	0.037	1.27	0.52
TAF11	NM_005643	Hs00194573_m1	1.17	0.001	0.00	0.02	1.40	0.57
TCF3	NM_003200	Hs00413032_m1	2.40	0.03	1.63	0.068	1.29	0.86
TDP1	NM_018319	Hs00217832_m1	3.12	0.001	3.16	0.01	1.12	0.83
TNFRSF1A	NM_001065	Hs00533560_m1	12.37	0.004	18.52	0.03	0.86	0.279
UBTF	NM_014233	Hs00610729_g1	6.38	0.002	2.40	0.011	1.09	0.297
USP38	NM_032557	Hs00261419_m1	3.35	0.01	4.98	0.078	1.43	0.367
WAPAL	NM_015045	Hs00386162_m1	3.94	0.003	3.69	0.026	1.17	0.44
WDR26	NM_025160	Hs00228535_m1	1.36	0.0008	0.71	0.01	1.48	0.95

↵* Genes found in pilot study.13
↵† Genes found in study using differential display/PCR.7
↵‡ Taqman assays were those pre-designed by Applied Biosystems, Warrington, UK.
CFS/ME, chronic fatigue syndrome/myalgic encephalomyelitis.