Table S1.

 

Gene name

Fold change NKG2C+ vs. NKG2C −

  

Global

IE-CTL

PB-CTL

NK

   
 

NCR1 (NK-p46)

7.95

4.18

18.66

 

KLRC1 / KLRC2 (NKG2A / NKG2C)*

8.81

3.72

34.35

 

KLRC3 (NKG2E)

16.46

10.56

36.54

 

TYROBP (DAP12)

27.39

15.53

109.71

 

KIR2DL4

5.86

2.9

15.67

 

KIR2DL1

4.73

2

7.06

 

KIR3DL3

6.18

2.19

9.87

 

KIR2DL5A

4.32

1.78

6.92

 

KIR3DL2

12.2

3.02

28.62

 

KIR2DS1

8.27

2.6

13.9

 

KIR2DS3

6.52

2.22

9.61

 

KIR3DL1

8.7

2.48

14.36

 

KIR2DL3

7.43

2.58

10.47

 

KIR2DL2

 

2.05

8.23

 

KIR2DS2

 

1.79

13.66

 

KIR2DS4

 

2.23

21.22

 

KIR2DS5

 

1.88

7.81

 

NCAM1 (CD56)

 

2.46

1.71

 

KLRB1 (CD161)

 

-1.56

 
 

FCGR3A / FCGR3B (CD16a / CD16b)*

 

22.17

 

FCGR3B (CD16b)

  

23.06

 

KLRD1 (CD94)

  

11.54

 

NKG7

  

2.17

 

NKTR

  

2.23

 

KLRC4 (NKG2F)

  

6.71

 

KLRG1

  

4.73

 

CD266

  

-1.52

 

KLRA1 (Ly-49L)

  

9.18

 

KLRF1

  

10.9

 

CD244

  

3.03

 

NCR3 (NK-p30)

  

4.95

     

NK & CTL Effector Function

   
 

GNLY (Granulysin)

1.76

1.51

2.58

 

CTSW (Cathepsin W)

1.58

1.71

1.51

 

PRF1 (Perforin 1)

1.56

 

2.27

 

TNFSF7

1.72

 

2.63

 

SIT1

-1.71

-1.91

 
 

ICAM2

-1.68

 

-1.71

 

SLAMF1

-2.88

-1.93

-3.25

 

LAT

-1.53

-1.55

 
     

Transformation & Apoptosis

   
 

PTTG3

1.54

 

1.96

 

FAS

1.59

 

1.67

 

LYN

2.76

1.76

4.51

 

ANXA4

1.61

 

1.63

 

RHOQ

1.64

 

2

 

HRASLS3

2.06

1.73

4.94

     

T Cell Receptor

   
 

TRAV20

 

-7.14

 
 

TRA@

 

-1.56

-3.53

 

TRB@

 

-3.28

 
     
This table shows data expressed as fold change for selected genes that were obtained when comparing separately IE-CTL and PB-CTL NKG2C+ and NKG2C− celiac clones analyzed in Fig. 4 (CMV-seropositive Pt.2 was excluded in this analysis). The thresholds for selecting significant genes were set in the same way as in the global analysis (relative difference, >1.5-fold; absolute difference, >100). However, because of the sample size (two individuals for IE-CTL and PB-CTL), no statistical analysis was performed and only fold changes are indicated. For completeness and ease of comparison, results of the global analysis were included. To conserve space, genes were selected based on the results of the global analysis. Additional NK genes were included. The genes located on chromosome 19q13 are in bold. Of interest, we identified a TCR functional group in both the IE-CTL and PB-CTL comparison, but not the global comparison. The microarray data shows that the TCR-α locus (TRA@) is down-regulated in both IE-CTL and PB-CTL NKG2C+ populations. In contrast, the TCR-β locus (TRB@) and the TCR-α chain variable gene 20 (TRAV20) were only down-regulated in the IE-CTL (TRAV20 is designated TCR AV30 by the Arden nomenclature; Arden, B., S.P. Clark, D. Kabelitz, and T.W. Mak. 1995. Immunogenetics . 42:455–500). Results for the TCR-β locus were confirmed by real-time quantitative RT-PCR.