MotifCDX2.H12INVITRO.1.M.C
Gene (human)CDX2
(GeneCards)
Gene synonyms (human)CDX3
Gene (mouse)Cdx2
Gene synonyms (mouse)Cdx-2
LOGO
LOGO (reverse complement)
Motif subtype1
Quality
C
Motif length10
ConsensusndTTACGRbn
GC content38.51%
Information content (bits; total / per base)8.873 / 0.887
Data sourcesMethyl-HT-SELEX
Aligned words2358

ChIP-Seq benchmarking Num. of experiments (peaksets) auROC, median auROC, best auPRC, median auPRC, best pseudo-auROC, median pseudo-auROC, best pseudo-log-auROC, median pseudo-log-auROC, best Centrality, median Centrality, best
Human 10 (61) 0.752 0.9 0.598 0.811 0.686 0.848 1.704 2.928 47.409 115.481
Mouse 21 (117) 0.79 0.896 0.659 0.802 0.707 0.829 1.892 2.4 70.0 164.509

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 4 experiments median 0.716 0.668 0.666 0.627 0.621 0.595
best 0.847 0.792 0.784 0.732 0.722 0.681
Methyl HT-SELEX, 1 experiments median 0.847 0.792 0.784 0.732 0.722 0.681
best 0.847 0.792 0.784 0.732 0.722 0.681
Non-Methyl HT-SELEX, 3 experiments median 0.642 0.602 0.599 0.572 0.565 0.551
best 0.79 0.733 0.733 0.682 0.677 0.639

rSNP benchmarking, ADASTRA odds-ratio -log-Fisher's P Pearson r Kendall tau
# 2.288 1.415 0.131 0.079
TF superclassHelix-turn-helix domains {3} (TFClass)
TF classHomeo domain factors {3.1} (TFClass)
TF familyHOX-related {3.1.1} (TFClass)
TF subfamilyCDX {3.1.1.9} (TFClass)
TFClass IDTFClass: 3.1.1.9.2
HGNCHGNC:1806
MGIMGI:88361
EntrezGene (human)GeneID:1045
(SSTAR profile)
EntrezGene (mouse)GeneID:12591
(SSTAR profile)
UniProt ID (human)CDX2_HUMAN
UniProt ID (mouse)CDX2_MOUSE
UniProt AC (human)Q99626
(TFClass)
UniProt AC (mouse)P43241
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 10 human, 21 mouse
HT-SELEX 3
Methyl-HT-SELEX 1
PCM
ACGT
01653.75650.75659.75393.75
02539.5139.5373.51305.5
0372.028.055.02203.0
04382.02.00.01974.0
052354.00.04.00.0
060.01855.010.0493.0
0719.027.02180.0132.0
081586.0254.0340.0178.0
09178.75765.75416.75996.75
10594.5639.5679.5444.5
PFM
ACGT
010.2770.2760.280.167
020.2290.0590.1580.554
030.0310.0120.0230.934
040.1620.0010.00.837
050.9980.00.0020.0
060.00.7870.0040.209
070.0080.0110.9250.056
080.6730.1080.1440.075
090.0760.3250.1770.423
100.2520.2710.2880.189
PWM
ACGT
010.1030.0990.112-0.402
02-0.088-1.431-0.4540.793
03-2.079-2.983-2.3411.316
04-0.432-5.011-5.7191.206
051.382-5.719-4.601-5.719
06-5.7191.144-3.903-0.178
07-3.341-3.0171.305-1.485
080.988-0.838-0.548-1.19
09-1.1860.261-0.3450.524
100.0080.0810.142-0.281
Standard thresholds
P-value Threshold
0.001 5.18485
0.0005 5.948105
0.0001 7.311355