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Table 1 Probe-sets representing 83 genes, their expression levels in the CX and in the HC at three time-points, organized according to their functional groups and SOMs. In bold are genes previously known to play a role in the pathophysiology of BM. (-) = Avg Diff change factor ≥ 1.5, and/or p > 0.05 for all pairwise comparisons.

From: Gene expression in cortex and hippocampus during acute pneumococcal meningitis

# AFFY ID REFSEQ ID GENE DESCR CX mock-infected CX early acute phase CX Late acute phase HC mock-infected HC early acute phase HC late acute phase SOM
Signal transduction
01 AF087943_s_at NM_021744.1 Cd14 monocyte differentiation antigen cd14 precursor 73.6 869.4 610.7 33.6 805.4 855.8 c7
02 AF087944mRNA_s_at NM_021744.1 Cd14 monocyte differentiation antigen cd14 precursor - - - 102.7 298.7 329.1 c2
03 U76206_at NM_133577.1 Gpr105 probable g protein-coupled receptor (vtr 15–20) - - - 79.0 132.6 199.4 c3
04 M18330_at NM_133307.1 Prkcd protein kinase c, delta type (npkc-delta) 68.2 135.8 259.9 - - - c19
05 M18330_g_at NM_133307.1 Prkcd protein kinase c, delta type (npkc-delta) 137.1 224.4 445.2 - - - c19
06 U38376_s_at NM_133551.1 Pla2g4a phospholipase a2 - - - 341.1 637.3 992.7 c3
07 AB000778_s_at NM_030992.1 Pld1 phospholipase d1 79.9 86.6 222.3 0.0 0.0 0.0 c19
08 U38812_s_at XM_216233.1 Itpr1 inositol 1,4,5-triphosphate receptor type 1 5.03 14.47 125.6 - - - c19
09 rc_AA859981_at NM_172224.1 Impa2 myo-inositol monophosphatase 2 13.47 27.81 90.51 - - - c19
10 U55192_at NM_019311.1 Inpp5d inositol ployphosphate 5' phosphatase (ship) 201.68 155.16 430.00 98.29 84.22 358.8 c14
11 rc_AA946044_s_at NM_030857.1 Lyn lyn tyrosine-protein kinase 34.15 84.15 172.62 22.02 68.72 192.35 c15
12 L14782_s_at NM_030857.1 Lyn lyn tyrosine-protein kinase 40.01 124.89 240.08 52.11 102.81 389.1 c15
13 S74141_s_at NM_013185.1 Hck tyrosine-protein kinase hck (p56-hck) 149.61 316.45 483.81 -22.42 409.21 690.65 c11
14 rc_AA892404_at   Btk bruton's tyrosine kinase (btk) - - - 134.22 46.21 -33.89 c20
15 M74488cds_s_at NM_012727.1 Camk4 calcium/calmodulin-dependent protein kinase type iv catalytic chain (CaM kinase-Gr) - - - 85.79 48.6 33.04 c20
16 U77038_g_at NM_053908.1 Ptph6 protein-tyrosine phosphatase 1c (ptp-1c) 159.7 304.7 851.4 73.8 224.9 901.7 c15
17 U77038_at NM_053908.1 Ptph6 protein-tyrosine phosphatase 1c (ptp-1c) -55.5 16.4 165.0 -4.6 8.2 226.5 c15
18 L19180_at NM_019140.1 Ptprd receptor-linked protein tyrosine phosphatase(ptp-p1) - - - 1106.6 524.8 243.7 c20
19 M10072mRNA_s_at NM_138507.1 Ptprc leukocyte common antigen variant 4 (cd45) -22.25 28.57 132.68 -17.53 14.35 167.07 c15
Innate immunity
20 L00981mRNA#2_at NM_012675.1 Tnf tumor necrosis factor precursor (tnf-alpha) - - - -64.6 87.3 93.3 c2
21 AJ222813_s_at NM_019165.1 Il18 interleukin-18 precursor 30.8 133.6 207.2 21.1 80.1 289.7 c11
22 U77777_s_at NM_019165.1 Il18 interleukin-18 precursor 67.3 148.4 292.6 38.9 119.0 321.0 c15
23 rc_AA892553_at NM_032612.1 Stat1 signal transducer and activator of transcription 1 -90.9 295.2 654.8 -66.5 234.4 676.0 c11
24 AF028784cds#1_s_at NM_017009.1 Gfap glial fibrillary acidic protein 534.9 3993.1 3184.2 923.9 4524.2 4733.2 c7
25 U04808_at NM_133534.1 Rbs11 cx3c chemokine receptor 1 (CX3CR1) 74.79 61.15 164.92 58.37 39.06 108.2 c14
26 U10894_s_at NM_017196.1 Aif1 alograft inflammatory factor-1 (aif-1) 174.02 223.69 781.79 168.54 210.13 784.71 c14
27 U17919_s_at NM_017196.1 Aif1 alograft inflammatory factor-1 (aif-1) 687.06 805.9 2154.2 620.75 733.07 2182.67 c14
28 X71127_at NM_019262.1 C1qb complement c1q subcomponent, b chain precursor 1158.3 1939.1 4410.7 981.7 1652.3 4279.6 c15
29 X71127_g_at NM_019262.1 C1qb complement c1q subcomponent, b chain precursor 134.4 507.1 1025.3 176.6 418.8 975.5 c15
30 X52477_at NM_016994.1   complement c3 precursor -93.1 493.2 751 81.4 367.5 568 c11
31 M29866_g_at NM_016994.1   complement c3 precursor -76.3 465.2 953.3 20.8 439.3 993.2 c11
32 U42719_at XM_215318.1   c4 complement protein mRNA 8 120.2 255.7 63.7 86.7 320.2 c15
33 rc_AI639117_s_at XM_215326.1   alternative-complement pathway C3/C5 convertase -519.8 818.2 1142.1 -382.7 1188.8 4030.51 c10
34 rc_AA900582_at NM_012488.1 A2m alpha-2-macroglobulin precursor - - - 285.4 599.5 846.0 c3
35 M23566exon_s_at NM_012488.1 A2m alpha-2-macroglobulin precursor -1469.4 -5.3 527.7 -609.4 307.7 2352.1 c11
Adaptive immunity
36 M31038_at NM_012645.1 RT1Aw2 class i histocompatibility antigen, non-rt1.a alpha-1 chain precursor -103.5 24.5 114.8 - - - c19
37 M24324_f_at NM_012645.1 RT1Aw2 class i histocompatibility antigen, non-rt1.a alpha-1 chain precursor 767.5 2015.0 3287.2 809.0 2211.3 4525.7 c11
38 M31018_f_at XM_228021.1   rt1 class i histocompatibility antigen, aa alpha chain precursor 401.5 2335.9 5023.4 416.4 2893.1 7012.5 c15
39 M64795_f_at XM_228021.1   h-2 class i histocompatibility antigen, d-37 alpha chain precursor -186.5 -8.3 345.6 -133.0 -15.2 584.4 c15
40 L40362_f_at XM_227984.1   h-2 class i histocompatibility antigen, d-k alpha chain precursor 189.5 1022.8 2404.2 124.3 1025.7 3378.6 c15
41 X13044_g_at NM_013069.1 Cd74 h-2 class ii histocompatibility antigen, gamma chain -58.7 273.0 2479.2 -79.8 335.3 2427.6 c15
42 X13044_at NM_013069.1 Cd74 h-2 class ii histocompatibility antigen, gamma chain 3.5 219.0 1232.5 2.2 187.1 1139.5 c15
43 X14254cds_at NM_013069.1 Cd74 h-2 class ii histocompatibility antigen, gamma chain -68.3 14.9 238.6 -39.3 -10.1 230.2 c15
44 X14254cds_g_at NM_013069.1 Cd74 h-2 class ii histocompatibility antigen, gamma chain -247.3 -84.2 643.7 -200.6 -108.2 572.6 c15
45 X56596_at XM_228006.1 RT1.B-BETA(1) rt1 class ii histocompatibility antigen, b-1 beta chain precursor (rt1.b-beta(1)). 49.9 141.0 400.2 39.7 138.8 408.3 c15
46 X53054_at XM_215333.1   rt1 class ii histocompatibility antigen, d-1 beta chain precursor. -54.0 -7.4 77.3 -24.2 -15.9 96.1 c15
Extracellular matrix/vasculature
47 M12112mRNA#3_s_at NM_007428.2 Agt angiotensinogen - - - 227.7 75.3 87.6 c20
48 J04035_at XM_237869.1 Trela elastin precursor (tropoelastin) - - - 254.9 51.9 -64.5 c20
49 X02601_at NM_133523.1 Mmp3 stromelysin-1 precursor (MMP3) - - - 30.5 76.1 67.1 c2
50 rc_AI169327_at NM_053819.1 Timp1 metalloproteinase inhibitor 1 precursor (TIMP1) 352.2 1573.0 1312.1 357.2 1475.4 1913.9 c7
51 rc_AI169327_g_at NM_053819.1 Timp1 metalloproteinase inhibitor 1 precursor (TIMP1) 9.8 2099.0 1779.3 50.6 2171.3 3101.5 c7
Cytoskeleton
52 rc_AA859305_s_at NM_173111.1   tropomyosin 3 60.7 143.4 184.4 - - - c19
53 X62952_at NM_031140.1 Vim vimentin 1415.3 3269.2 4141.0 1032.8 3165.7 6517.2 c11
54 rc_AA892333_at XM_147357.1 Tuba6 tubulin alpha-6 chain. -58.1 1246.0 1762.2 34.0 989.2 2595.5 c11
55 X73524_at NM_022531.1 Des desmin 113.1 108.6 32.2 - - - c12
56 rc_AA852046_s_at XM_238547.1   gamma-smooth muscle isoactin promoter and exon 1 7.6 65.22 82.99 - - - c19
Redox homeostasis
57 U18729_at NM_024160.1 Cyba nadph oxidase light chain subunit p22phox -40.6 20.3 202.5 -109.7 5.4 255.8 c15
58 rc_AI172247_at NM_017154.1 Xdh xanthine dehydrogenase -33.5 248.0 420.6 9.1 281.3 529.0 c11
59 J02722cds_at NM_012580.1 Hmox1 heme oxygenase 1 -3.4 258.0 389.9 -32.4 385.8 1074.1 c11
60 rc_AI179610_at NM_010442.1 Hmox1 heme oxygenase 94.5 733.2 797.4 96.5 778.6 1995.6 c10
61 S81433_at S81433.1   heme oxygenase-2 -154.9 -95.2 187.4 - - - c19
62 X07365_s_at NM_030826.2 Gpx1 glutathione peroxidase 1 1243.0 1709.8 3171.5 1286.8 1683.8 4025.0 c15
63 X12367cds_s_at NM_030826.2 Gpx1 glutathione peroxidase 1 310.7 359.2 814.5 278.8 314.5 924.1 c14
64 J03752_at NM_134349.1 Mgst1 microsomal glutathione s-transferase 1 40.8 36.5 110.9 43.5 39.2 428.1 c14
65 AF056031_at NM_021593.1 Kmo kynurenine 3-hydroxylase 58.4 80.5 153.2 56.2 64.2 209.3 c15
Cell death/survival
66 C07012_f_at NM_139096.1 Ppicap cyclophilin c - - - 283.5 750.3 1145.2 c3
67 rc_AA891591_at NM_031356.1 Pdcd8 apoptosis-inducing factor (Aif) - - - 49.8 96.7 132.5 c3
68 X76453_at NM_017060.1 Hrasls3 h-rev 107 - - - 120.1 213.4 405.7 c3
69 rc_AI231213_g_at XM_237691.1   metastasis suppressor homolog (Kai1) - - - 89.7 142.7 302.4 c3
70 L12138_at NM_019179.1 Tyms thymidylate synthase (tsase) 8.5 6.8 53.4 - - - c19
71 U89282_at NM_022591.1 Tep1 telomerase protein component 1 (tlp1) -92.4 -58.0 66.0 - - - c19
72 U14647_at NM_012762.2 Casp1 caspase-1 56.8 282.8 442.9 53.0 253.6 479.3 c11
73 S79676_s_at NM_012762.2 Casp1 caspase-1 - - - 153.5 361.4 508.0 c3
74 J05122_at NM_012515.1 Bzrp peripheral-type benzodiazepine receptor 116.0 468.5 964.8 121.8 424.7 1241.2 c15
75 J02962_at NM_031832.1 Lgals3 galectin-3 23.7 282.9 470.9 10.9 266.4 751.6 c11
76 L21711_s_at NM_012976.1 Lgals5 galectin-5 175.3 1620.0 2164.8 240.5 1713.2 3658.9 c11
77 U72741_g_at NM_010708.1 Lgals9 galectin-9 723.4 2339.9 2827.1 605.9 2388.0 4132.9 c11
78 U72741_at NM_010708.1 Lgals9 galectin-9 90.4 447.0 388.1 74.3 400.3 566.9 c7
79 rc_AI104781_at NM_017260.1 Alox5ap 5-lipoxygenase activating protein (FLAP) 45.53 116.35 176.86 35.42 81.00 131.91 c11
80 AB000199_at NM_139329.1 Cca2 cca2 -10.36 18.14 101.83 - - - c19
81 rc_AA998164_s_at NM_171991.1 Ccnb1 cyclin b1 61.05 38.71 110.33 41.28 45.38 107.2 c14
82 D16308_at XM_216276.1   cyclin d2 - - - 222.21 34.01 31.73 c20
83 AF036548_at NM_054008.1 Rgc32 rgc-32 - - - 116.07 9.22 9.5 c20
Growth control/neuroplasticity
84 A09811cds_s_at NM_013122.1 Igfbp2 insulin-like growth factor binding protein 2 precursor 218.1 744.1 1292.1 - - - c19
85 X52498cds_at NM_021578.1 Tgfb1 transforming growth factor beta 1 precursor 59.3 199.0 324.5 115.2 106.2 327.1 c15
86 AF089825_at NM_031815.1 Inhbe activin beta-e chain 146.2 151.4 40.9 - - - c12
87 S79820_at NM_172563.1 Hlf hepatic leukemia factor - - - 207.0 88.9 16.3 c20
88 E03082cds_s_at NM_031073.1 Ntf3 neurotrophin-3 precursor (nt-3) 68.6 103.4 11.3 - - - c12
89 X62322_g_at NM_017113.1 Grn granulins precursor 543.09 1259.51 1686.5 544.37 1010.75 1952.91 c11
90 X06916_at NM_012618.1 S100a4 nerve growth factor induced protein 42a 211.43 616.49 558.56 133.32 566.98 1346.52 c10
Neurotransmission
91 AF020757_s_at NM_053656.2 P2rx2 p2x purinoreceptor 2 - - - 54.41 28.99 20.25 c20
92 D63665_at NM_057124.1 P2ry6 p2y purinoreceptor 6 84.30 312.05 447.53 44.77 213.71 493.88 c11
93 D00833_g_at NM_013133.1 Glra1 glycine receptor alpha-1 precursor - - - 57.99 42.25 16.72 c20
Ionic homeostasis
94 U75916_at NM_011597.1 Tjp2 zonula occludens 2 - - - 236.4 633.7 576.1 c2
Lipid metabolism
95 AA850219_at NM_012823.1 Anx3 lipocortin-iii - - - 30.8 61.5 101.9 c3
Miscellaneous
96 M86389cds_s_at NM_031970.1 Hspb1 heat shock 27 kda protein (hsp27) -264.3 112.6 72.1 -157.6 75.5 173 c7
97 U13177_at NM_031237.1 Ube2d3 ubiquitin-conjugating enzyme E2D 3 414.3 220.7 87.2 - - - c12
98 D10729_s_at NM_080767.1 Psmb8 proteasome subunit beta type 8 precursor 51.9 216.6 449.7 74.1 246.4 579.4 c15
99 D10757_at NM_012708.1 Psmb9 proteasome subunit beta type 9 precursor 30 35.3 96.6 4 76.4 131.9 c15
100 D10757_g_at NM_012708.1 Psmb9 proteasome subunit beta type 9 precursor 148.7 820.5 1059.9 120 806.5 1644.2 c11
101 D45249_g_at NM_017264.1 Psme1 proteasome activator complex subunit 1 - - - 2145.6 4508.6 7335.3 c3
102 D45250_s_at NM_017257.1 Psme2 proteasome activator complex subunit 2 405.4 988.1 1494.7 439.3 1047.9 1876 c11