Convergent transcriptomic and genomic evidence supporting a dysregulation of CXCL16 and CCL5 in Alzheimer’s disease

Li, Xiao; Zhang, Deng-Feng; Bi, Rui; Tan, Li-Wen; Chen, Xiaogang; Xu, Min; Yao, Yong-Gang

doi:10.1186/s13195-022-01159-5

Alzheimer's Research & Therapy

Table 2 mRNA expression levels of chemokine genes in peripheral blood of patients with MCI and AD and healthy controls

From: Convergent transcriptomic and genomic evidence supporting a dysregulation of CXCL16 and CCL5 in Alzheimer’s disease

Gene	ID (GSE63060)	80 MCI/104 controls		145 AD/104 controls		ID (GSE63061)	109 MCI/134 controls		139 AD/134 controls
Gene	ID (GSE63060)	logFC	P	logFC	P	ID (GSE63061)	logFC	P	logFC	P
C–C motif chemokine ligand
CCL2	ILMN_1720048	− 0.013	0.210	0.003	0.793	ILMN_1720048	0.005	0.416	− 0.002	0.670
CCL3	ILMN_1671509	0.043	0.012*	0.050	6.65 × 10⁻⁴*	ILMN_1671509	0.006	0.647	0.015	0.216
CCL5	ILMN_1773352	0.086	0.241	6.75 × 10⁻⁴	0.991	ILMN_1773352	0.011	0.853	0.032	0.575
CCL8	ILMN_1772964	0.038	0.036*	0.016	0.291	ILMN_1772964	0.029	0.482	− 0.017	0.650
CCL11	ILMN_1725519	0.002	0.877	0.002	0.806	-	-	-	-	-
CCL14	-	-	-	-	-	ILMN_3192001	− 6.72 × 10⁻⁴	0.895	0.003	0.6
CCL15	ILMN_1670658	− 0.002	0.809	− 0.009	0.250	-	-	-	-	-
CCL16	ILMN_2045324	0.004	0.677	− 7.10 × 10⁻⁴	0.935	-	-	-	-	-
C–C motif chemokine receptor
CCR1	ILMN_1678833	− 0.166	0.001*	− 0.037	0.420	ILMN_1678833	− 0.039	0.319	− 0.033	0.370
CCR3	ILMN_1763322	0.027	0.741	− 0.085	0.219	ILMN_1763322	0.104	0.130	− 0.032	0.601
CCR5	ILMN_2145033	− 0.012	0.379	− 0.006	0.609	ILMN_2145033	− 0.001	0.795	0.004	0.464
CCR6	ILMN_2387696	0.054	0.084	0.034	0.189	ILMN_2387696	0.017	0.496	0.027	0.246
CCR7	ILMN_1715131	0.030	0.715	0.026	0.733	ILMN_1715131	− 0.11	0.094	− 0.092	0.166
CCR9	ILMN_2337386	− 0.008	0.561	0.005	0.737	ILMN_2337386	− 0.006	0.176	− 0.005	0.222
CCRL2	ILMN_1675346	− 0.015	0.387	− 0.012	0.435	ILMN_1675346	0.001	0.804	− 0.007	0.107
C-X-C motif chemokine ligand
CXCL1	ILMN_1787897	− 0.007	0.599	0.002	0.841	ILMN_1787897	− 0.021	0.241	0.013	0.448
CXCL6	ILMN_2161577	− 0.006	0.447	0.011	0.116	ILMN_2161577	− 0.003	0.411	− 7.16 × 10⁻⁵	0.986
CXCL8	ILMN_1666733	− 0.047	0.339	0.075	0.092	ILMN_1666733	− 0.025	0.310	− 0.004	0.875
CXCL9	ILMN_1745356	0.006	0.611	0.011	0.291	-	-	-	-	-
CXCL10	ILMN_1791759	− 0.119	8.36 × 10⁻⁵*	− 0.046	0.138	ILMN_1791759	− 0.034	0.043*	− 0.036	0.025*
CXCL11	ILMN_2067890	0.010	0.270	0.002	0.809	ILMN_2067890	5.29 × 10⁻³	0.229	0.006	0.168
CXCL13	ILMN_1718552	− 0.014	0.136	− 0.004	0.638	ILMN_1718552	0.002	0.637	− 0.002	0.597
CXCL16	ILMN_1728478	0.124	0.017*	0.111	0.029*	ILMN_1728478	0.097	0.012*	0.118	0.003*
C-X-C motif chemokine receptor
CXCR2	ILMN_1680397	0.264	2.30 × 10⁻⁵*	0.155	0.037*	ILMN_1680397	0.158	0.010*	0.122	0.057
CXCR4	ILMN_2320888	0.083	0.066	0.165	3.79 × 10⁻⁵*	ILMN_2320888	0.007	0.818	0.057	0.045
CXCR5	ILMN_2337928	0.069	0.321	− 0.033	0.556	ILMN_2337928	− 0.046	0.334	− 0.11	0.01
CXCR6	ILMN_1674640	− 0.003	0.902	0.004	0.864	ILMN_1674640	0.017	0.394	0.032	0.076
C-X3-C motif chemokine receptor
CX3CR1	ILMN_1745788	0.067	0.098	0.013	0.716	ILMN_1745788	0.046	0.126	0.044	0.116
X-C motif chemokine receptor
XCR1	ILMN_1764034	− 0.006	0.637	− 0.017	0.155	ILMN_1764034	0.008	0.416	0.008	0.323

The original data GSE63060 and GSE63061 [42] were extracted from GEO (https://www.ncbi.nlm.nih.gov/geo), with no data available for CCL1 and CXCL2
Six individuals without explicit disease definition in GSE63061 were excluded from the analysis
A p value < 0.05 was marked with a “*”
-, missing data
ID Unique identifier for the probe
LogFC Log2 fold change of mRNA expressional mean value in MCI or AD patients relative to that in controls

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ISSN: 1758-9193

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