Table 2.

Fifty-nine probe sets downregulated at least 1.7-fold in CBP null B cells

Probe set ID
Gene title
Gene symbol
Controls, average
Mutants, average
Mutant-control ratio
100368_at   —   —   161   34   0.21  
100682_f_at   Kappa   —   8 657   4532   0.52  
101319_f_at   Similar to kappa light chain   —   2 629   1453   0.55  
103700_r_at   —   —   140   75   0.53  
161423_r_at   —   —   135   18   0.14  
161899_f_at   —   —   402   218   0.54  
162035_f_at   —   —   97   18   0.18  
93506_at   —   —   266   147   0.55  
97563_f_at   Similar to Ig H-chain   —   10 986   5338   0.49  
98765_f_at   Similar to immunoglobulin heavy chain   —   6 232   2863   0.46  
98896_at   RIKEN cDNA 5830457O10 gene  5830457O10Rik  1 743   1012   0.58  
99466_at   RIKEN cDNA 6230401O10 gene  6230401O10Rik  348   180   0.52  
104444_at   RIKEN cDNA 9430098E02 gene  9430098E02Rik  559   282   0.50  
96188_at   Adenosine deaminase, RNA specific  Adar  681   388   0.57  
97574_f_at   Expressed sequence Al324046  Al324046  5 750   2619   0.46  
98372_at   Aldehyde dehydrogenase family 1, subfamily A3  Aldh1a3  65   19   0.30  
102118_at   Ankyrin repeat domain 17  Ankrd17  124   68   0.55  
93372_at   Acidic (leucine-rich) nuclear phosphoprotein 32 family  Anp32a  1 024   202   0.20  
100462_at   ADP-ribosylation factor 6  Arf6  265   117   0.44  
93631_at   rho/rac guanine nucleotide exchange factor (GEF) 2  Arhgef2  140   80   0.57  
93797_g_at   ATPase, Na+/K+ transporting, alpha 1 polypeptide  Atp1a1  1 174   526   0.45  
102917_at   Class II transactivator  C2ta  1 176   671   0.57  
99899_at   Chemokine (C-C motif) receptor 6  Ccr6  2 791   1238   0.44  
104443_at   Chemokine (C-C motif) receptor 7  Ccr7  1 063   583   0.55  
97832_at   CD97 antigen  Cd97  732   286   0.39  
95466_at   Coactosin-like 1 (Dictyostelium)  Cotl1  725   156   0.21  
104681_at   Diaphanous homolog 1 (Drosophila)  Diap1  822   462   0.56  
104673_at   Eph receptor A4  Epha4  143   62   0.43  
99397_at   Excision repair cross-complementing repair deficiency  Ercc2  454   260   0.57  
94720_at   E26 avian leukemia oncogene 1, 5′ domain  Ets1  919   292   0.32  
94141_at   Fc receptor, IgE, low-affinity 11, alpha polypeptide  Fcer2a  4 414   1627   0.37  
100693_at   GABA-A receptor, subunit gamma 3  Gabrg3  138   76   0.55  
93750_at   Gelsolin  Gsn  657   297   0.45  
97867_at   Hydroxysteroid 11-beta dehydrogenase 1  Hsd1lb1  331   181   0.55  
92614_at   Inhibitor of DNA binding 3  Idb3  1 161   506   0.44  
100360_f_at   Immunoglobulin heavy chain 1a (serum IgG2a)  Igh-1a  7 765   3612   0.47  
101743_f_at   Immunoglobulin heavy chain (J558 family)  Igh-VJ558  2 042   914   0.45  
101747_f_at   Immunoglobulin heavy chain (J558 family)  Igh-VJ558  2 195   903   0.41  
97577_f_at   Similar to Ig H-chain V-JH3-region  Igh-VJ558  2 165   1052   0.49  
100376_f_at   Ig heavy chain  Igh-VJ558///J558  4 370   2321   0.53  
97576_f_at   Ig heavy chain  J558  2 746   1375   0.50  
102793_at   Keratin-associated protein 8-1  Krtap8-1  78   5   0.07  
100721_f_at   Single-chain Ig VH and VL domains  LOC56304  13 928   8156   0.59  
102630_s_at   Lymphotoxin A  Lta  818   346   0.42  
100362_f_at   Unknown (protein for MGC:60843)  MGC60843  7 778   4004   0.51  
98373_at   Membrane-spanning 4 domains, subfamily A, member 4C  Ms4a4c  725   400   0.55  
101981_at   Nuclear receptor subfamily 1, group H, member 2  Nr1h2  417   191   0.46  
102197_at   Nucleobindin 2  Nucb2  107   43   0.40  
93694_at   Period homolog 2 (Drosophila)  Per2  77   44   0.57  
95325_at   Pleckstrin homology, Sec7 and coiled-coil domains 1  Pscd1  359   150   0.42  
104442_at   RAB14, member RAS oncogene family  Rab14  583   291   0.50  
103091_at   v-rel oncogene-related B  Relb  1 038   597   0.58  
101967_at   Stromal cell-derived factor 2  Sdf2  300   142   0.47  
96131_at   TBC1 domain family, member 10  Tbc1d10  463   240   0.52  
103541_at   t-complex-associated testis expressed 2  Tcte2  137   69   0.50  
101918_at   Transforming growth factor, beta 1  Tgfb1  2 410   1334   0.55  
104192_at   Translocated promoter region  Tpr  77   37   0.48  
101167_at   Ubiquitin specific protease 53  Usp53  424   221   0.52  
92432_at
 		 Zinc finger protein 574
 		Zfp574
 		 297
 		 166
 		 0.56
 
Probe set ID
Gene title
Gene symbol
Controls, average
Mutants, average
Mutant-control ratio
100368_at   —   —   161   34   0.21  
100682_f_at   Kappa   —   8 657   4532   0.52  
101319_f_at   Similar to kappa light chain   —   2 629   1453   0.55  
103700_r_at   —   —   140   75   0.53  
161423_r_at   —   —   135   18   0.14  
161899_f_at   —   —   402   218   0.54  
162035_f_at   —   —   97   18   0.18  
93506_at   —   —   266   147   0.55  
97563_f_at   Similar to Ig H-chain   —   10 986   5338   0.49  
98765_f_at   Similar to immunoglobulin heavy chain   —   6 232   2863   0.46  
98896_at   RIKEN cDNA 5830457O10 gene  5830457O10Rik  1 743   1012   0.58  
99466_at   RIKEN cDNA 6230401O10 gene  6230401O10Rik  348   180   0.52  
104444_at   RIKEN cDNA 9430098E02 gene  9430098E02Rik  559   282   0.50  
96188_at   Adenosine deaminase, RNA specific  Adar  681   388   0.57  
97574_f_at   Expressed sequence Al324046  Al324046  5 750   2619   0.46  
98372_at   Aldehyde dehydrogenase family 1, subfamily A3  Aldh1a3  65   19   0.30  
102118_at   Ankyrin repeat domain 17  Ankrd17  124   68   0.55  
93372_at   Acidic (leucine-rich) nuclear phosphoprotein 32 family  Anp32a  1 024   202   0.20  
100462_at   ADP-ribosylation factor 6  Arf6  265   117   0.44  
93631_at   rho/rac guanine nucleotide exchange factor (GEF) 2  Arhgef2  140   80   0.57  
93797_g_at   ATPase, Na+/K+ transporting, alpha 1 polypeptide  Atp1a1  1 174   526   0.45  
102917_at   Class II transactivator  C2ta  1 176   671   0.57  
99899_at   Chemokine (C-C motif) receptor 6  Ccr6  2 791   1238   0.44  
104443_at   Chemokine (C-C motif) receptor 7  Ccr7  1 063   583   0.55  
97832_at   CD97 antigen  Cd97  732   286   0.39  
95466_at   Coactosin-like 1 (Dictyostelium)  Cotl1  725   156   0.21  
104681_at   Diaphanous homolog 1 (Drosophila)  Diap1  822   462   0.56  
104673_at   Eph receptor A4  Epha4  143   62   0.43  
99397_at   Excision repair cross-complementing repair deficiency  Ercc2  454   260   0.57  
94720_at   E26 avian leukemia oncogene 1, 5′ domain  Ets1  919   292   0.32  
94141_at   Fc receptor, IgE, low-affinity 11, alpha polypeptide  Fcer2a  4 414   1627   0.37  
100693_at   GABA-A receptor, subunit gamma 3  Gabrg3  138   76   0.55  
93750_at   Gelsolin  Gsn  657   297   0.45  
97867_at   Hydroxysteroid 11-beta dehydrogenase 1  Hsd1lb1  331   181   0.55  
92614_at   Inhibitor of DNA binding 3  Idb3  1 161   506   0.44  
100360_f_at   Immunoglobulin heavy chain 1a (serum IgG2a)  Igh-1a  7 765   3612   0.47  
101743_f_at   Immunoglobulin heavy chain (J558 family)  Igh-VJ558  2 042   914   0.45  
101747_f_at   Immunoglobulin heavy chain (J558 family)  Igh-VJ558  2 195   903   0.41  
97577_f_at   Similar to Ig H-chain V-JH3-region  Igh-VJ558  2 165   1052   0.49  
100376_f_at   Ig heavy chain  Igh-VJ558///J558  4 370   2321   0.53  
97576_f_at   Ig heavy chain  J558  2 746   1375   0.50  
102793_at   Keratin-associated protein 8-1  Krtap8-1  78   5   0.07  
100721_f_at   Single-chain Ig VH and VL domains  LOC56304  13 928   8156   0.59  
102630_s_at   Lymphotoxin A  Lta  818   346   0.42  
100362_f_at   Unknown (protein for MGC:60843)  MGC60843  7 778   4004   0.51  
98373_at   Membrane-spanning 4 domains, subfamily A, member 4C  Ms4a4c  725   400   0.55  
101981_at   Nuclear receptor subfamily 1, group H, member 2  Nr1h2  417   191   0.46  
102197_at   Nucleobindin 2  Nucb2  107   43   0.40  
93694_at   Period homolog 2 (Drosophila)  Per2  77   44   0.57  
95325_at   Pleckstrin homology, Sec7 and coiled-coil domains 1  Pscd1  359   150   0.42  
104442_at   RAB14, member RAS oncogene family  Rab14  583   291   0.50  
103091_at   v-rel oncogene-related B  Relb  1 038   597   0.58  
101967_at   Stromal cell-derived factor 2  Sdf2  300   142   0.47  
96131_at   TBC1 domain family, member 10  Tbc1d10  463   240   0.52  
103541_at   t-complex-associated testis expressed 2  Tcte2  137   69   0.50  
101918_at   Transforming growth factor, beta 1  Tgfb1  2 410   1334   0.55  
104192_at   Translocated promoter region  Tpr  77   37   0.48  
101167_at   Ubiquitin specific protease 53  Usp53  424   221   0.52  
92432_at
 		 Zinc finger protein 574
 		Zfp574
 		 297
 		 166
 		 0.56
 

Microarray analysis was performed using Affymetrix U74Av2 chips and RNA isolated from unstimulated splenic B cells purified by positive selection. Average signal intensity for CBPflax/flox;CD19+/Cre (mutants, n = 2) and combined control mice (CBPflox/flox [n = 2] and CBP+/flox; CD19+/Cre [n = 2]). Probe sets shown had at least 1.7-fold lower average signal intensity in the mutants compared with combined controls. P < .05, 2-tailed t test. Probe sets scored as absent in all 6 samples by the Affymetrix analysis software were excluded. Ratio of mutant average signal to control average signal is indicated in the right-hand column.

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