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Table 1 Key genes associated with acute allograft rejection according to human microarray studies

From: Gene expression profiling in acute allograft rejection: challenging the immunologic constant of rejection hypothesis

Author: Tannapfel et al. 2001[14]
Organ: Liver
IL3 MMP9 TGF-B1-3 TIMP1 TNF CLUSTERIN (CLU) IL10    
Author: Sreekumar et al. 2002[15]
Organ: Liver
C1QB C3 LIPC GZMB HSPA1A IGF1 IL2 (IRF9*) STAT1 ACADM
HLA-I HLA-II PCK1 SELPLG TGFB1 TNF TNFAIP3 TNFSF10 UBB3# UBA1
UBE2N ADAM17 GYS2 CTPS       
Inkinen et al. 2005[16]
Organ: Liver
HLA-D IL2RB IL2RG CASP1 CASP3 GZMA GZMB SELL ICAM3 ITGA4
SELE VCAM1 IFNG IL1B       
Asaoka et al. 2009[28]
Organ: Liver
AKAP11 ALOX15 CASP8 CFLAR FFAR3 IFNAR1 IGFBP3 IL12RB1 LTA POU4F1
PPP1R8 PPP1R3A PVRL1 TNK2       
Author: Gimino et al. 2003[17]Lande et al. 2006[30](MINNEAPOLIS Dataset)
Organ: Lung
C4B CCR7 CD28 CD3E CD84 CTLA4 CXCR3 GZMK GZMA IFNG
IGKC ITK KIR PRF1 STAT4 IL2RA IL2RB Zap70 LCK  
Patil et al. 2008 (MINNEAPOLIS2 Dataset)[18]
Organ: Lung
IFITM1 CD8A MARCKS CCL3 GZMB ITM2A IL32 IL8 CCL4  
Author: Karason et al. 2006[19]
Organ: Heart
C3 C4A CXCL9 CXCL10 GBP1 HLA-C HLA-F HLA-J IGFBP4 NPPA
PSME2 RARRES3 STAT1        
Author: Akalin et al. 2001[21]
Organ: Kidney
Humig
(CXCL9)
C3 CD18
(ITGB2)
ISGF-3
(STAT1)
MCL1 MIP-3β
(CCL19)
NNMT RING4
(TAP1)
TCRB # IL2-SP 2#
(LCP1)
Author: Sarwal et al. 2003 (STANFORD Dataset)[22]
Organ: Kidney
HLA-A HLA-B HLA-C HLA-E HLA-DR HLA-DQ HLA-DMA HLA-DRB4 TGFBR2 TGFR1
TCR DARC C4B CXCL9 SCYA3
(CCL3)
SCYA5
(CCL5)
CCR5 SCYA2
(CCL2)
CD20 PERFORIN
CD53 NFKB1 NK4 (IL32) CX3CR1 GZMA STK17B IL6R IL2RB IL15RA IL16
STAT1 CASP10 IFNGR1 IGHG3 IGKC IGL IGHM LENG4 CD59 VCAM1
CXCL9 CXCL10 CCR5        
Author: Flechner et al. 2004 (CLEVELAND Dataset)[23]
Organ: Kidney
C1QB CCL5 CD14 CD163 TRB@ CD16 CD2 CD27 CD3D CD48
CD53 CD64 (FCGR1A) CD8 CDW52 CXCR4 GZMA HLA-F IFI30 IL10RA IL10RB
IL4R ISG20 PKR
(PRKRA)
RAGE4 (RAGE) TNFRSF1b      
Reeve et al. 2009 (EDMONTON Dataset)[24]
Organ: Kidney
APOBEC3G CCL4 CCL5 CD8A CRTAM CXCL9 CXCL10 CXCL11 FAM26F GBP1
GBP2 GBP4 GBP5 GZMA GZMB INDO LCP2 LILRB1 NLRC5 PSMB9
Author: Morgun et al. 2006 (SAN PAULO Dataset)[25]
Organ: Heart + Lung + Kidney
(SAN PAULO+ MINNEAPOLIS+STANFORD+CLEVELAND Datasets)
ABCA7 CD14 DAP10 HLA-A HSD17B7 ISG20 LEF1 NT5C2 RU2 TRAF2
ADAM15 CD2 F2R HLA-B HSPC043 ISGF3G (IRF9) LIAS PAK4 SELPLG TRB@
ADAM8 CD3Z FCER1G HLA-DMA HSPC129 ITGB2 LILRB4 PCDHGA8 SLC14A2 UBD
B2M CD53 FKBP14 HLA-DMB IFI30 KCNJ5 LOC90586 PSCD4 SMG1 UBE1L
BAX CD7 FLJ10244 HLA-DQB1 IGHG3 KCNK6 LOC92033 PSMB9 SORL1 UBE2B
BTN3A3 CD74 FLJ11106 HLA-DRA IGKC KIAA0924 LTB PSME1 STAT1 UBE2L6
C1QA CG012 FLJ11151 HLA-DRB1 IGLC2 KIAA1030 LTB4R RAB7L1 SULT1A3 UCP2
C4A CHD3 FLJ11467 HLA-DRB3 IGLC6 KIAA1170 MAFF RAC2 TAP1 WSX1 (IL27RA)
CASP4 CORO1A FY HLA-DRB5 IGLJ3 KIAA1257 MSH3 RARRES3 TAPBP ZAP70
CCL18 CTSS GMFG HLA-E IL2RB KIAA1348 NKG7 RASGRP2 TCBRV (IL23A) ZNRD1
CCL5 CX3CL1 GZMK HLA-F IRF3 LAT NM23-H6 RBL1 TNFAIP3 TNFSF13B
CXCL9 D21S2056E HA-1 HLA-G IRF5 LCK NPHP1 RIMS1   
Reference: Saint-Mezard et al. 2008 (PARIS Dataset)[26]
Organ: Kidney
(PARIS+STANFORD+CLEVELAND+NON HUMAN PRIMATES Datasets)
ARHGDIB ARPC2 CASP1 CASP4 CCL5 CD163 CD44 CD48 CD52 CD53
CD8A CSPG2 CXCL10 CXCL9 FCER1G FER1L3 GBP1 GBP2 GMFG GZMA
HCK HCLS1 HLA-B HLA-C HLA-DMA HLA-DMB HLA-DPA1 HLA-DQB1 HLA-DQB2 HLA-DRA
HLA-DRB3 HLA-E HLA-F HLA-G IFI30 IFITM1 IGHM IL10RA ISG20 ITGB2
LAPTM5 LCK LCP1 LCP2 LTF LYZ MMP7 NMI PLEK PLSCR1
PRG1 PRKCB1 PSMB10 PSMB8 PSMB9 RAC2 RUNX3 SERPING1 SLA STAT1
TAP1 TCIRG1 TIMP1 TNC TNFRSF7 UBD UBE2L6 WARS WFDC2 T3JAM (TRAF3IP3)
Rodder et al. 2010 (TENON/INSELSPITAL Dataset)[29]
Organ: Kidney
Meta-analysis focused on metzincins and related genes
(TENON/INSELSPITAL+EDMONTON+STANFORD+ CLEVELAND Datasets)
TIMP1 MMP7 ADAMTS18 ADAMTS6 ADAMTS17 ADAMTS8 ADAMTSL4 ADAM18 TLL2 ADAM17
PLG LAMA4 EMILIN2        
Chen et al. 2010 (STANFORD2 dataset)[27]
Organs: Kidney, Heart
(STANFORD2+CLEVELAND+SAN PAULO Datasets)
CXCL9 CXCL11 CXCR4 STAT1 CCL4 C6orf32 MARCKS IGSF6 CD2 TRPM1
IL10RA RARRES3 NR4A2 PTPRC LEF1 TAP1 CTSS ISG20 CCL8 BASP1
SLC2A3 LCP2 HLA-DMA BIRC5 HLA-DMB CASP4 SELL HLA-F CD44 HLA-DQB1
PIK3CD PECAM1 MDK MELK CDKN3 CPD SH2D2A CCNB2 HLA-DRA B2M
DIAPH1 USP34 SCAND2 RUNX1 S100A4      
  1. Genes underlining highly redundant themes among studies are in bold.
  2. This table reports upregulated genes associated with acute allograft rejection detected by microarrays technology analyzing human graft samples (bronchoalveolar lavage for lung samples, tissue biopsies for the other samples). Additional detail regarding the data extraction is provided in Additional file 1.
  3. *Synonymous gene symbols, according to NCBI Gene, are provided in brackets.
  4. #The original name reported in the publication was: TCR Active β-chain related gene (M12886: unmapped). 2# The original name reported in the publication was: IL-2-stimulated phosphoprotein. 3#The original name reported in the publication was: ubiquitin.