Table 2

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

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.

Rioja et al. Arthritis Res Ther 2005 7:R101   doi:10.1186/ar1458

Open Data