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Table 2 Genes upregulated in ankle joints from SCW-induced arthritis in Lewis (LEW/N) rats

From: Gene expression profiles in the rat streptococcal cell wall-induced arthritis model identified using microarray analysis

Accession no. Gene name Day -13.8 Day -13 Day 3 C I
   Delta P Delta P Delta P   
Angiogenesis
NM_030985 AGTR1 _ _ _ _ 4.0 2.3E-05 7 L
AI639162 ANGPT1 _ _ _ _ 1.8 8.5E-08 7 L
NM_031012 ANPEP _ _ _ _ 2.2 2.9E-18 7 M
AI101782 COL18A1 _ _ _ _ 2.9 6.3E-26 7 L
AI170324 FIGF _ _ 1.6 9.4E-04 2.4 4.6E-11 6 L
NM_012620 SERPINE1 6.6 2.3E-06 _ _ 27.6 0.0E+00 4 L
Cell adhesion
NM_012830 CD2 _ _ 2.1 2.9E-04 _ _ 3 L
NM_054001 CD36L2 _ _ _ _ 2.6 5.4E-05 7 L
AF065147 CD44 2.1 2.1E-08 1.6 1.1E-03 _ _ 2 M
BE108345 COL12A1 _ _ _ _ 2.5 4.6E-43 7 M
AI172281 COL5A2 _ _ _ _ 2.0 9.3E-06 7 H
NM_021760 COL5A3 _ _ _ _ 3.1 6.9E-27 7 M
AF084544 CSPG2 2.3 2.4E-03 2.1 5.8E-04 8.9 7.2E-37 5 L
NM_053719 EMB _ _ _ _ 3.5 1.7E-19 7 L
NM_053634 FCNB 8.7 3.0E-28 8.0 1.1E-17 29.0 0.0E+00 5 M
AI236745 GALNT1 _ _ _ _ 2.9 0.0E+00 7 L
NM_133298 GPNMB _ _ 2.2 3.6E-12 2.5 0.0E+00 6 H
NM_012967 ICAM1 8.9 0.0E+00 4.4 7.2E-09 4.0 2.2E-11 5 L
AF268593 ITGAM 2.0 2.6E-03 3.8 1.7E-15 6.4 3.3E-18 5 L
BI296880 ITGB3 1.5 7.0E-03 _ _ 2.1 2.3E-03 4 L
AF003598 ITGB7 2.0 8.9E-14 1.6 1.2E-03 1.9 1.1E-06 5 L
U56936 KLRB1B _ _ _ _ 3.0 6.4E-03 7 L
NM_022393 MGL _ _ 2.1 7.3E-08 2.1 2.3E-11 6 L
U72660 NINJ1 _ _ _ _ 1.8 6.6E-28 7 M
BE097805 PCDHGC3 _ _ 1.8 3.0E-03 _ _ 3 L
AJ299017 RET _ _ _ _ 2.8 1.6E-08 7 L
AF071495 SCARB1 _ _ _ _ 1.8 6.9E-03 7 L
L25527 SELE _ _ 3.1 3.6E-04 _ _ 3 L
D10831 SELL 1.6 9.3E-05 _ _ 1.8 6.9E-06 4 L
BI296054 SELP 1.8 7.1E-08 1.9 2.6E-07 2.2 4.2E-13 5 L
AI176034 TNC _ _ _ _ 2.6 3.7E-26 7 M
AF159103 TNFIP6 2.2 6.2E-04 2.2 3.1E-05 5.0 1.3E-21 5 L
NM_031590 WISP2 _ _ _ _ 2.6 0.0E+00 7 M
Chemotaxis
NM_053619 C5AR1 1.6 5.0E-06 2.4 9.6E-21 2.7 2.8E-32 5 M
NM_019205 CCL11 3.9 2.3E-03 3.7 2.3E-07 _ _ 2 L
NM_057151 CCL17 2.2 1.1E-05 _ _ _ _ 1 L
AF053312 CCL20 8.3 7.3E-19 10.2 2.8E-10 15.5 3.5E-32 5 L
U22414 CCL3 15.3 1.7E-19 3.2 3.8E-05 2.1 1.1E-08 5 L
U06434 CCL4 6.0 1.5E-17 _ _ _ _ 1 L
NM_031116 CCL5 _ _ 2.6 5.9E-11 2.0 1.1E-03 6 L
NM_020542 CCR1 5.2 1.4E-15 2.1 3.0E-05 2.1 3.2E-03 5 L
NM_021866 CCR2 5.1 2.7E-07 3.3 2.9E-05 6.9 2.7E-13 5 L
NM_053960 CCR5 6.2 4.3E-19 6.0 1.8E-09 6.0 1.4E-10 5 L
D87927 CINC2 3.5 7.0E-03 _ _ _ _ 1 L
AF253065 CKLF1 3.3 6.3E-09 3.0 2.7E-07 8.2 8.6E-08 5 L
NM_022218 CMKLR1 _ _ 2.5 3.4E-03 _ _ 3 L
U22520 CXCL10 3.2 4.4E-09 2.5 9.0E-03 1.4 1.3E-03 5 L
NM_053647 CXCL2 38.7 1.6E-07 2.3 9.1E-03 2.6 1.0E-03 5 L
NM_022214 CXCL6 2.2 2.3E-04 _ _ 7.5 3.2E-06 4 L
NM_017183 CXCR2 10.6 1.5E-07 3.6 1.3E-03 _ _ 2 L
NM_053415 CXCR3_V1 _ _ _ _ 1.9 9.5E-04 7 L
AA945737 CXCR4 1.6 1.7E-03 1.7 3.9E-04 3.4 2.7E-15 5 L
NM_030845.1 GRO 17.1 0.0E+00 23.0 2.4E-04 19.8 1.8E-12 5 L
NM_053321 PTAFR _ _ 2.5 2.0E-03 _ _ 3 L
NM_031530 SCYA2 3.4 6.0E-26 3.2 1.8E-16 6.0 0.0E+00 5 M
Complement activation
D88250 C1S _ _ 1.6 4.4E-03 1.8 7.5E-22 6 M
_ C2 6.9 9.20E-42 3.5 1.28E-11 16.8 0.0E+00 5 L
NM_016994.1 C3 2.7 2.0E-10 3.0 5.4E-12 10.4 0.0E+00 5 L
AI169829 MASP1 _ _ _ _ 2.4 8.5E-08 7 L
Immune response/inflammatory response
XM_215303 RT1.S3 _ _ 2.0 0.0012 1.6 1.5E-03 6 L
AF307302 BTNL2 _ _ 2.1 1.0E-15 3.2 0.0E+00 6 M
NM_021744 CD14 2.8 7.8E-18 2.0 4.4E-06 1.7 7.3E-05 5 M
NM_012705 CD4 _ _ _ _ 1.8 1.3E-07 7 L
NM_013069 CD74 _ _ 2.2 3.5E-18 2.7 1.1E-31 6 H
NM_031538 CD8a _ _ 9.5 2.7E-03 10.9 6.2E-07 6 L
BI282755 EDG3 _ _ _ _ 2.1 5.9E-03 7 L
X73371 FCGR2 3.1 1.4E-20 3.8 2.4E-08 6.5 0.0E+00 5 L
NM_053843 FCGR3 2.2 3.3E-15 2.0 2.8E-12 2.6 0.0E+00 5 M
NM_133624 GBP2 3.4 6.2E-35 _ _ 1.5 3.8E-06 4 L
AF176534 HFE _ _ _ _ 1.8 6.6E-03 7 L
XM_215347 HLA-DMA _ _ 2.0 1.22E-14 2.7 0.0E+00 6 L
_ HLA-DMB _ _ 2.0 5.42E-15 3.2 1.1E-13 6 M
NM_022605 HPSE _ _ _ _ 1.9 3.0E-09 7 L
NM_133533 IGB _ _ _ _ 2.9 8.4E-09 7 L
NM_053374 IGIFBP _ _ 2.2 7.2E-03 _ _ 3 L
AJ245643 IL1a 2.7 1.2E-03 _ _ _ _ 1 L
NM_031512 IL1b 22.0 1.1E-30 9.5 4.5E-15 5.7 1.6E-35 5 L
NM_053953 IL1R2 2.5 1.9E-15 _ _ _ _ 1 L
NM_022194 IL1RN 7.4 2.8E-03 _ _ _ _ 1 L
NM_012589 IL6 10.0 7.3E-17 20.7 7.9E-04 21.4 5.5E-17 5 L
NM_013110 IL7 _ _ _ _ 2.8 2.4E-04 7 L
NM_012591 IRF1 2.9 4.7E-13 2.6 2.8E-08 3.3 2.0E-13 5 L
NM_130741 LCN2 2.4 1.7E-09 3.4 9.8E-12 13.2 0.0E+00 5 M
BF282471 LCP2 2.6 2.2E-04 3.3 2.4E-04 6.2 4.4E-06 5 L
NM_022634 LST1 4.9 6.2E-14 6.3 6.4E-14 16.7 2.0E-36 5 L
NM_031634 MEFV 2.7 1.9E-07 _ _ 1.9 7.4E-05 4 L
X52711 MX1 _ _ 2.8 4.9E-07 1.9 2.1E-15 6 L
NM_134350 MX2 _ _ 2.9 5.9E-04 _ _ 3 L
NM_053734 NCF1 _ _ 2.0 9.4E-16 2.0 3.7E-06 6 L
AA858801 NFKB1 2.1 1.1E-12 _ _ _ _ 1 M
AW672589 NFKBIA 2.5 5.2E-36 _ _ _ _ 1 M
L12562 NOS2A 6.0 1.9E-05 _ _ _ _ 1 L
Z18877 OAS1 1.6 8.4E-06 2.4 3.8E-06 1.8 3.7E-06 5 L
NM_053288 ORM1 _ _ 2.0 7.0E-04 3.1 9.8E-19 6 L
NM_031713 PIRB 2.4 3.9E-06 2.5 2.6E-06 3.3 7.6E-10 5 L
AF349115 PPBP _ _ _ _ 3.2 8.5E-03 7 L
NM_080767 PSMB8 1.5 3.0E-03 2.3 2.0E-09 3.3 0.0E+00 5 L
AI599350 PSMB9 2.0 2.0E-07 2.1 7.4E-09 3.7 2.3E-25 5 L
AB048730 PTGES 8.2 8.1E-40 3.9 1.0E-04 2.4 6.7E-04 5 L
NM_012645 RT1Aw2 _ _ 3.3 0.000334 5.4 2.7E-10 6 L
X57523.1 TAP1 1.6 2.8E-04 1.6 9.8E-03 2.4 5.6E-07 5 L
NM_021578 TGFB1 _ _ 2.1 8.4E-06 2.6 1.7E-10 6 L
AA819227 TNF 11.1 1.3E-27 2.5 1.9E-04 _ _ 2 L
BM390522 TNFRSF1b 14.3 8.2E-19 3.7 4.2E-06 8.0 3.5E-06 5 L
NM_012759 VAV1 4.6 7.1E-05 7.6 1.2E-07 10.8 1.2E-12 5 L
Proteolysis and peptidolysis
NM_024400 ADAMTS1 3.1 9.2E-16 2.1 7.0E-04 3.5 1.3E-16 5 L
AA849399 CTSZ 1.6 6.4E-08 1.5 8.9E-12 3.4 1.6E-33 5 M
NM_012582 HP 2.1 4.8E-20 _ _ 1.7 5.5E-05 4 L
NM_031670 KDAP 18.8 8.7E-23 6.6 5.0E-07 48.2 2.3E-37 5 L
AF154349 LGMN _ _ 2.1 1.8E-06 2.8 0.0E+00 6 M
NM_053963 MMP12 _ _ 4.1 8.6E-05 7.7 8.2E-13 6 L
M60616.1 MMP13 _ _ _ _ 2.0 4.7E-08 7 M
X83537 MMP14 _ _ _ _ 1.8 2.1E-17 7 H
NM_053606 MMP23A _ _ _ _ 2.1 1.6E-11 7 L
NM_133523 MMP3 2.9 5.7E-29 2.7 1.4E-12 9.3 0.0E+00 5 H
AI102069 NSF _ _ 1.7 8.1E-03 1.8 3.9E-04 6 L
BF549923 PCSK5 _ _ 1.8 1.5E-03 3.4 7.5E-21 6 L
X63434 PLAU _ _ _ _ 1.8 2.9E-14 7 M
AF007789 PLAUR 6.2 4.6E-04 _ _ 4.9 7.2E-03 4 L
NM_053372 SLPI 2.6 8.3E-09 2.6 5.4E-22 7.0 0.0E+00 5 M
NM_053819 TIMP1 2.2 0.0E+00 1.8 5.9E-09 6.4 0.0E+00 5 H
NM_053299 UBD _ _ _ _ 4.7 9.1E-04 7 L
Signal transduction
NM_019285 ADCY4 _ _ _ _ 2.3 3.5E-05 7 L
BF285345 ARRB2 _ _ 1.8 2.5E-05 2.5 6.5E-20 6 L
NM_057196 BAIAP2 _ _ 4.4 5.5E-03 _ _ 3 L
NM_012766 CCND3 _ _ _ _ 2.1 6.0E-08 7 L
NM_013169 CD3d _ _ _ _ 3.9 3.7E-07 7 L
AF065161 CISH 2.5 1.1E-03 _ _ _ _ 1 L
NM_031352 DBNL _ _ 1.7 6.6E-11 1.8 1.2E-04 6 L
BI278868 EPIM _ _ _ _ 2.1 6.7E-03 7 L
NM_024147 EVL _ _ _ _ 3.6 8.0E-09 7 L
L02530 FZD2 _ _ _ _ 3.3 6.3E-07 7 L
NM_030829.1 GPRK5 _ _ _ _ 2.0 1.0E-04 7 L
U87863.1 HGS _ _ 1.9 3.6E-03 _ _ 3 L
AY044251 IL13RA1 _ _ _ _ 3.2 3.0E-08 7 L
AI178808 IL2RG 2.4 8.1E-14 2.5 10.0E-23 5.6 0.0E+00 5 L
NM_133380 IL4R _ _ 6.5 4.8E-05 7.5 3.4E-18 6 L
NM_017020 IL6R _ _ 1.8 2.4E-10 1.8 1.6E-12 6 L
NM_019311 INPP5D _ _ _ _ 1.9 7.9E-20 7 L
NM_012798 MAL 2.1 1.9E-04 _ _ _ _ 1 L
AW533194 MAPK10 2.4 5.7E-03 _ _ _ _ 1 L
AF411318 MT1A 2.6 2.4E-27 2.4 2.2E-04 3.4 6.0E-34 5 M
NM_012613 NPR1 _ _ _ _ 3.3 1.9E-03 7 L
U32497 P2RX4 _ _ 1.6 4.2E-15 1.9 2.5E-20 6 L
AF202733 PDE4B 2.4 1.1E-07 2.5 8.1E-04 2.3 2.5E-03 5 L
BE099769 PLAA _ _ 2.5 8.7E-03 _ _ 3 L
X04440 PRKCB1 _ _ _ _ 1.8 3.3E-08 7 L
AF254800 RAB0 _ _ _ _ 1.9 7.8E-04 7 L
NM_019250 RALGDS 1.9 8.1E-05 _ _ _ _ 1 L
NM_021661 RGS19 _ _ _ _ 1.8 1.8E-05 7 L
AF321837 RGS2 _ _ _ _ 2.3 2.4E-09 7 L
NM_053338 RRAD 7.0 5.2E-05 4.8 1.6E-05 4.0 6.5E-03 5 L
BE117558 SFRP1 _ _ _ _ 1.8 2.4E-08 7 M
BF389682 SOCS3 3.8 0.0E+00 2.0 1.2E-05 3.6 3.2E-33 5 L
NM_022230 STC2 _ _ 3.1 2.2E-03 _ _ 3 L
BG668493 STMN2 _ _ 2.3 2.6E-06 14.0 7.2E-42 6 L
U21683 SYK _ _ _ _ 1.8 2.1E-05 7 L
  1. Genes upregulated (Delta > 1.8 and P < 0.01) on days -13.8 (4 hours after intra-articular injection of streptococcal cell wall [SCW]), -13 and 3 are grouped by their general ontology and clustered based on their similarity in terms of pattern of expression (C) and expression level (I). Data are expressed as the mean fold increase in gene expression (Delta) in SCW-injected animals as compared with expression in the corresponding phosphate-buffered saline (PBS) control group (four to five animals/group), along with the P value. C, number of clusters to which the gene corresponds (trend plots are given in Fig. 6); I, intensity of gene expression (L = low intensity [0–500], M = medium intensity [500–1500], H = high intensity [1500–4000]). A line (_) in the Delta or P cell indicates that the gene was not found to be differentially expressed at that particular time point.