Table 3 |
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|
Summary of genes regulated by ubiquitously functional TFBSs for five TFs: CTCF, GABP, GATA2, STAT1, and YY1 |
||
|
TF |
Ubiquitously activated |
Ubiquitously repressed |
|
|
||
|
CTCF |
AL645504.2 |
|
|
ANKRD46 |
||
|
BICD2 |
||
|
C17orf81 |
||
|
CEP135 |
||
|
CRYAA |
||
|
EGLN2 |
||
|
POMT2 |
||
|
TSFM |
||
|
GABP |
GARTa |
|
|
PSMB4a |
||
|
SYNJ1a |
||
|
ZNF259a |
||
|
GATA2 |
CTSH |
CCM2 |
|
PLSCR2 |
||
|
TNFAIP8L1 |
||
|
STAT1 |
ATG4C |
HCFC1 |
|
DCLRE1C |
RPS24 |
|
|
DIMT1L |
TMED5 |
|
|
ELP3 |
XXbac- |
|
|
BPG116M5.1 |
||
|
GSTK1 |
ZNF367 |
|
|
IRF7b |
||
|
IRF9b |
||
|
KIF2A |
||
|
MTMR9 |
||
|
NMI |
||
|
SBNO2 |
||
|
YY1 |
COQ5cd |
AC091153.1 |
|
CPNE1 |
ATP5O |
|
|
CPSF2cd |
BIRC6d |
|
|
CR613718 |
CAPZA2 |
|
|
IP6K2a |
CXorf26 |
|
|
NARSac |
DKFZp434H247 |
|
|
PAK4d |
EFHA1 |
|
|
PSMB4ac |
MRPS10c |
|
|
UBR5 |
MRPS18Bacd |
|
|
NUP160 |
||
|
OXCT1 |
||
|
PSMD8ac |
||
|
SNX27 |
||
|
SNX3ad |
||
|
SRP68ad |
||
|
TNKS |
||
|
|
||
|
A composite of RefSeq [104], UCSC known genes [105] and GENCODE [106] annotations were used. The GREAT gene annotation tool [107] was used to compare our data with results from published experiments: a targets of CREB, identified by ChIP-chip in HEK293T cells in three different time points after forskolin stimulation [81], b genes upregulated by tamoxifen [108] in HMEC-E6 cells, genes upregulated in Jurkat cells by IFN-α and IFN-β but not by overexpression of a constitutively active form of IRF3 [109], c targets of YY1 identified by Chip-chip [77], d targets of HNF4α identified by Chip-chip in hepatocytes from TF targets. |
||
|
Whitfield et al. Genome Biology 2012 13:R50 doi:10.1186/gb-2012-13-9-r50 |
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