Table I. Microarray analysis
Probe IDGeneCD3WT/Basal WTaCD3Elk/CD3WTbCD3Sap/CD3WTbCD3ES/CD3WTbSRF Target?
1454809_atNcoa72.43***0.830.17***0.18***Yes
1436329_atEgr3161.05***0.960.20***0.14***Yes
1427682_a_atEgr283.13***0.960.37***0.34***Yes
1427683_atEgr2152.87***0.900.38**0.23***Yes
1449746_s_atGlipr13.43***0.690.41*0.53*Yes
1424927_atGlipr11.57*0.65*0.44***0.35***Yes
1422134_atFosb8.05***0.46*0.51*0.26***Yes
1455034_atNr4a26.85***0.41*0.590.40*nc
1421486_atEgr32.07***0.810.60*0.60*Yes
1417065_atEgr1111.05***0.940.60*0.45**Yes
1423100_atFos22.39***1.030.620.43*Yes
1450750_a_atNr4a25.70***0.60*0.62*0.52*nc
1415899_atJunb5.67***0.860.64*0.36***Yes
1438796_atNr4a33.85***0.43*0.650.35**Yes
1447863_s_atNr4a24.91***0.62*0.700.52*nc
1455497_atLeng91.50***0.73*0.80*0.59***nc
1419714_atCd2741.76***0.77*0.81*0.73*nc
1436074_atAY07806915.76***0.61*0.820.46**Yes
1417564_atMed72.07***0.870.830.77*nc
1450698_atDusp28.64***0.910.84*0.56**Yes
1423309_atTgoln11.67***0.950.840.90nc
1448728_a_atNfkbiz7.16***0.66*0.840.62*Yes
1418255_s_atSrf2.01***0.67*0.840.75*Yes
1437247_atFosl22.94**0.39*0.840.45*Yes
1449851_atPer14.21***0.49**0.850.43**Yes
1416442_atIer212.82***0.710.850.45**Yes
1452646_atTrp53inp22.07***0.68*0.860.60*nc
1416505_atNr4a137.00***0.650.870.41*Yes
1451214_atKbtbd21.56***0.860.870.70***nc
1437199_atDusp56.64***0.72*0.880.52**nc
1452519_a_atZfp365.24***0.880.890.50***Yes
1424684_atRab5c1.60*0.31***0.900.23***Yes
1460642_atTraf41.52*0.68*0.900.52***nc
1418635_atEtv31.79***0.72*0.900.73*nc
1449188_atMidn1.83***0.66*0.910.53***nc
1432669_at9030420N05Rik3.71***0.67*0.911.01nc
1448171_atSiah21.79*0.61*0.930.43***nc
1448666_s_atTob22.00***0.61**0.930.68*nc
1460510_a_atCoq10b2.26***0.65*0.950.68*nc
1435041_atMyl61.90***0.48***0.950.52***Yes
1433943_atItprip2.93***0.65*0.960.56**nc
1440302_atSlc25a32.00**0.49**0.970.52**nc
1439550_atTnrc18 int2.44***0.70*0.990.69*Yes
1448170_atSiah22.00***0.60**1.000.62**nc
1439639_atAW9906501.97***0.70*1.020.92nc
1424880_atTrib13.98***0.58*1.030.62*nc
1418936_atMaff1.79***0.77*1.040.72*nc
1431115_atTgif21.50**0.79*1.070.66**nc
1427653_atTcra1.86*0.691.090.61*nc
1423134_atRilpl22.19***0.65*1.100.82nc
1416359_atSnx182.41**0.64*1.120.77nc
1416630_atId31.86**0.931.120.75*nc
1418322_atCrem2.01**0.58*1.120.82nc
1416034_atCd24a1.58***0.881.140.78*nc
1418099_atTnfrsf1b1.78**0.881.160.76*nc
1438439_atGpr1712.40***0.64**1.160.73*Yes
1421578_atCcl43.42***0.65*1.270.71*Yes
1424990_atOrai12.61***0.68*1.290.66*nc
1418353_atCd52.71***0.771.330.64*nc
1421655_a_atCcr42.30**0.771.66*0.50*nc
  • Triplicate RNA preparations from DP thymocytes unstimulated or stimulated for 30 min by plate-bound CD3, from the indicated TCF genotypes, were analyzed. Microarray data have been deposited in the National Center for Biotechnology Information's Gene Expression Omnibus (19) and are accessible through GEO Series accession number GSE21546 (www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE21546). SRF target genes are from previous functional analyses (27) (C. Esnault and R. Treisman, unpublished observations). The Ncoa7 transcripts probably represent the ERK-inducible Ncoa7B transcript (39), an SRF target (Supplemental Fig. 8B).

  • a CD3 inducibility in WT cells.

  • b Ratio of the CD3-induced probe signal in TCF mutant cells to WT.

  • ***p < 0.0001; **p < 0.001; *p < 0.05.

  • Elk, Elk-1−/−; ES, SAP-1−/− Elk-1−/−; nc, no SRF binding site confirmed within 10 kb of the transcription start site; Sap, SAP-1−/−.