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Table 3 Comparisons of GeneChip® and RT-PCR expression fold changes in mutant versus wild-type MECP2 expressing clones for 11 differentially expressed genes

From: Gene expression patterns vary in clonal cell cultures from Rett syndrome females with eight different MECP2 mutations

  Fold Changes for Paired Comparisons
Gene Symbol/Unigene No. Method 705delG R306C 1155del32 R106W p value
INCREASED       
MMP3 GC 0.91 5.80 31.50 3.90 0.113
  RT 0.89 4.81 11.63 3.49 0.094
FBLN1 GC 2.00 11.80 2.00 0.37 0.228
  RT 2.03 15.87 2.97 0.72 0.199
SLC16A7 GC 1.80 1.40 2.30 0.77 0.210
  RT 1.30 1.69 1.76 0.94 0.112
MTAP44 GC 1.00 2.40 6.10 3.50 0.081
  RT 1.36 4.77 20.10 24.15 0.058
LTBP1 GC 1.20 1.30 2.10 2.00 0.047
  RT 1.36 3.25 3.59 2.16 0.029
NTN4 GC 3.20 5.50 15.10 3.80 0.016
  RT 2.30 2.10 9.80 3.10 0.039
Hs.19669 GC 2.00 2.20 1.90 1.40 0.008
  RT 1.22 1.60 2.07 1.30 0.040
Hs.23311 GC 5.90 0.12 2.60 4.40 0.609
  RT 3.00 0.23 1.86 11.79 0.467
DECREASED       
COMP GC 0.28 0.37 0.02 0.10 0.045
  RT 0.18 0.25 0.05 0.09 0.011
KLF5 GC 0.53 0.42 0.56 0.27 0.014
  RT 0.63 0.29 1.25 0.42 0.157
CRIP1 GC 0.32 2.80 0.11 0.50 0.347
  RT 0.20 2.81 0.10 0.42 0.284
  1. P-values correspond to t-tests of whether average log fold change across the 4 different sets of matched clones differs from zero GC = GeneChip, RT = RT-PCR
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