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
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 |