Table 1.

List of 25 genes up-regulated in the brains of CBE-treated mice but not in SVNI-infected mice

	SVNI versus control	CBE versus control	CBE + SVNI versus control
Statistically significant difference between CBE and SVNI
Fcrls	0.2¶ ± 0.0	3.5 ± 0.2	2.4 ± 0.1
Gpr34	0.5¶ ± 0.1	2.1 ± 0.2	1.5 ± 0.1
Trem2	0.7 ± 0.1	5.5 ± 0.4	3.6 ± 0.8
Cx3cr1	0.9 ± 0.1	2.5 ± 0.1	2.0 ± 0.3
Ifi27	0.9 ± 0.1	2.6 ± 0.1	2.4 ± 0.3
Siglech	1.0 ± 0.3	2.2 ± 0.2	1.9 ± 0.4
Hexa	1.2 ± 0.1	2.1 ± 0.1	1.7 ± 0.2
H2-Ob	1.2 ± 0.4	4.5 ± 0.8	4.3 ± 0.9
Itgb5	1.3 ± 0.2	2.3 ± 0.1	1.9 ± 0.3
Csf1r	1.3 ± 0.2	2.5 ± 0.1	2.2 ± 0.4
Cybrd1*	1.3 ± 0.4	3.2 ± 0.5	2.4 ± 0.5
Cd33	1.3 ± 0.3	2.9 ± 0.2	2.5 ± 0.6
Hpgds	1.3 ± 0.2	2.7 ± 0.3	1.9 ± 0.4
Ctsd	1.4 ± 0.1	3.1 ± 0.3	2.2 ± 0.4
Hexb	1.5 ± 0.2	3.2 ± 0.3	2.7 ± 0.6
Spp1	1.5 ± 0.0	2.1 ± 0.3	1.5 ± 0.2
Gusb	1.7 ± 0.1	2.4 ± 0.4	2.0 ± 0.4
Capn3	1.9 ± 0.3	2.6 ± 0.2	2.3 ± 0.3
H2-Oa	2.0 ± 1.2	5.5 ± 0.2	4.9 ± 1.5
Lpar5	2.1 ± 0.2	3.0 ± 0.2	2.7 ± 0.4
Lilra5	2.1 ± 0.1	6.4 ± 1.0	4.5 ± 1.4
Not statistically significant difference between CBE and SVNI
Ang	1.7 ± 0.5	2.4 ± 0.6	1.7 ± 0.6
Abcc3	1.7 ± 0.2	2.3 ± 0.4	2.1 ± 0.4
Lpcat2	1.9 ± 0.2	2.1 ± 0.1	1.9 ± 0.4
Arhgap19	1.8 ± 0.2	2.1 ± 0.3	1.8 ± 0.3

RNAseq analysis of brains of control, SVNI, CBE, and CBE + SVNI mice 5 DPI. The numbers indicates fold-change versus control

^¶Significantly down-regulated (≥ 2.0, fdr ≤ 0.05). Genes in bold font indicate higher expression levels in microglia than all other non-myeloid cells in the CNS. Italicized genes also indicate enrichment in microglia over other myeloid cells

*Expression at or more highly in astrocytes than other cells in the CNS