Application of an Integrative Computational Framework in Trancriptomic Data of Atherosclerotic Mice Suggests Numerous Molecular Players
Table 3
Common TF motif families in the promoters of 36 genes belonging to cluster 2 and to the categories “immune response” and “inflammatory response.” The percentage column depicts the percentage of genes whose promoters have at least one match with the respective motif family. Percentages and P value calculations are based on mouse promoters.
Family
Description
P value
%
V$CTCF
CTCF and BORIS gene family
0.00000185
86
V$MZF1
Myeloid zinc finger 1 factors
0.00000878
89
V$EGRF
EGR/nerve growth factor induced protein C and related factors
0.00011981
86
V$SRFF
Serum response element binding factor
0.00012387
83
V$PLAG
Pleomorphic adenoma gene
0.00015650
86
V$GREF
Glucocorticoid responsive elements
0.00016410
92
V$KLFS
Krueppel like transcription factors
0.00024104
100
V$GLIF
GLI zinc finger family
0.00170920
81
V$STAT
Signal transducer and activator of transcription
0.00177177
92
V$PAX5
PAX-2/5/8 binding sites
0.00246076
89
V$E2FF
E2F-myc activator/cell cycle regulator
0.00400401
86
V$XBBF
X-box binding factors
0.00470139
89
V$GATA
GATA binding factors
0.00499105
94
V$PAX6
PAX-4/PAX-6 paired domain binding sites
0.00504198
89
V$ETSF
Human and murine ETS1 factors
0.00646776
100
V$GCMF
Chorion-specific TFs with a GCM DNA binding domain
0.00921126
83
V$HEAT
Heat shock factors
0.01639280
92
V$RXRF
RXR heterodimer binding sites
0.01834270
97
V$FKHD
Fork head domain factors
0.02095320
94
V$IRFF
Interferon regulatory factors
0.02221250
86
V$HAND
Twist subfamily of class B bHLH transcription factors
0.03199970
94
V$ABDB
Abdominal-B type homeodomain transcription factors
