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Table 2 The significant genes from the differential expression analysis of downstream targets to the HER2 pathway, with the trimethylation mark status shown for the four cell lines used in this study

From: Analysis of H3K4me3 and H3K27me3 bivalent promotors in HER2+ breast cancer cell lines reveals variations depending on estrogen receptor status and significantly correlates with gene expression

Genes TCGA
Mean ER-
TCGA Mean ER+ Adjusted p-value AU565 SKBR3 MB361 UACC812
EGFR 4255.32 1032.16 5.14E-07 Both Both Both Both
HDAC11 1178.71 2209.11 5.14E-07 H3K4 H3K4 H3K4 H3K4
PADI2 13,566.18 3909.07 9.85E-07 H3K4 H3K4 H3K4 H3K4
MSMB 108.29 1019.47 7.81E-06 H3K4 H3K4 H3K27 NA
SPRY4 3322.68 2033.51 1.03E-05 H3K4 H3K4 H3K4 Both
PRKACB 3114.35 7224.62 3.13E-05 Both H3K4 H3K4 H3K4
C2orf54 6664.59 1740.34 8.39E-05 H3K4 H3K4 Both H3K4
COL9A2 530.53 1131.71 1.46E-04 Both Both H3K4 Both
TJP3 1814.35 2869.42 2.37E-04 H3K4 H3K4 H3K4 H3K4
DSC2 6958.56 3751.01 8.48E-04 H3K4 H3K4 H3K4 H3K4
KRT7 46,998.21 21,373.81 8.48E-04 H3K4 H3K4 H3K4 H3K4
MICALL2 798.74 1120.52 8.48E-04 Both Both Both Both
GGT1 4120.00 1856.94 1.00E-03 H3K4 NA H3K4 NA
HLA-DOB 283.85 146.84 1.00E-03 NA H3K27 H3K27 H3K27
TES 6267.21 4322.84 1.00E-3 H3K4 H3K4 H3K4 Both
GRB7 19,522.94 9486.44 1.04E-03 H3K4 H3K4 H3K4 H3K4
TMPRSS2 2215.91 1031.48 1.40E-03 H3K4 H3K4 H3K4 Both
BCL11A 431.03 161.07 1.40E-03 Both Both Both Both
KMO 2436.18 1157.30 1.40E-03 H3K4 H3K4 Both Both
CDR2L 3813.56 2289.99 1.73E-03 H3K4 H3K4 H3K4 H3K4
MACROD1 415.71 582.91 2.08E-03 H3K4 Both Both Both
STARD3 21,362.24 12,410.42 3.81E-03 H3K4 H3K4 H3K4 H3K4
HER2 302,441.26 168,929.72 5.10E-03 H3K4 H3K4 H3K4 H3K4
VLDLR 1718.06 1004.34 7.08E-03 NA NA NA NA
RNF123 1765.68 2124.94 0.01 NA NA NA NA
PKD1 3058.32 3757.13 0.02 NA NA NA H3K4
EGR1 9793.62 18,680.44 0.03 Both Both Both Both
NR1H2 2741.91 3140.22 0.03 H3K4 Both H3K4 H3K4
ST6GAL1 8994.97 5555.26 0.03 Both H3K4 Both Both
ATG2A 1652.56 2460.58 0.03 H3K4 H3K4 H3K4 H3K4
ITPKC 2043.29 2397.91 0.04 H3K4 NA NA NA
CEACAM7 182.03 97.02 0.05 NA H3K27 H3K27 NA
  1. Both referring to having both the H3K4me3 and H3K27me3 marks