MotifCDX2.H12INVIVO.0.PS.A
Gene (human)CDX2
(GeneCards)
Gene synonyms (human)CDX3
Gene (mouse)Cdx2
Gene synonyms (mouse)Cdx-2
LOGO
LOGO (reverse complement)
Motif subtype0
Quality
A
Motif length13
ConsensusnbTTTATKRChbb
GC content33.58%
Information content (bits; total / per base)12.727 / 0.979
Data sourcesChIP-Seq + HT-SELEX
Aligned words1000

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) 0.828 0.976 0.696 0.945 0.825 0.979 2.778 5.069 102.18 288.201
Mouse 21 (117) 0.878 0.978 0.83 0.965 0.878 0.975 3.428 5.276 150.886 401.77

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 4 experiments median 0.805 0.76 0.706 0.679 0.631 0.622
best 0.856 0.798 0.782 0.734 0.695 0.669
Methyl HT-SELEX, 1 experiments median 0.831 0.764 0.768 0.712 0.695 0.659
best 0.831 0.764 0.768 0.712 0.695 0.659
Non-Methyl HT-SELEX, 3 experiments median 0.778 0.756 0.643 0.646 0.567 0.585
best 0.856 0.798 0.782 0.734 0.695 0.669

rSNP benchmarking, ADASTRA odds-ratio -log-Fisher's P Pearson r Kendall tau
# 7.658 5.658 0.314 0.208
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
01191.0173.0382.0254.0
02117.0145.0173.0565.0
038.06.010.0976.0
0411.05.01.0983.0
0535.019.017.0929.0
06998.01.01.00.0
073.046.00.0951.0
0841.04.0524.0431.0
09430.03.0562.05.0
1018.0809.058.0115.0
11158.0472.045.0325.0
1298.0335.0180.0387.0
13134.0247.0148.0471.0
PFM
ACGT
010.1910.1730.3820.254
020.1170.1450.1730.565
030.0080.0060.010.976
040.0110.0050.0010.983
050.0350.0190.0170.929
060.9980.0010.0010.0
070.0030.0460.00.951
080.0410.0040.5240.431
090.430.0030.5620.005
100.0180.8090.0580.115
110.1580.4720.0450.325
120.0980.3350.180.387
130.1340.2470.1480.471
PWM
ACGT
01-0.267-0.3650.4220.016
02-0.752-0.54-0.3650.812
03-3.253-3.484-3.0661.357
04-2.985-3.622-4.5251.364
05-1.925-2.497-2.5981.308
061.379-4.525-4.525-4.982
07-3.975-1.663-4.9821.331
08-1.774-3.7830.7360.542
090.539-3.9750.806-3.622
10-2.5461.17-1.439-0.769
11-0.4550.632-1.6840.261
12-0.9260.291-0.3260.435
13-0.618-0.012-0.520.63
Standard thresholds
P-value Threshold
0.001 3.69616
0.0005 4.84236
0.0001 7.15956