MotifPDX1.H12CORE.0.P.B
Gene (human)PDX1
(GeneCards)
Gene synonyms (human)IPF1, STF1
Gene (mouse)Pdx1
Gene synonyms (mouse)Ipf1
LOGO
LOGO (reverse complement)
Motif subtype0
Quality
B
Motif length10
ConsensusTGATWRATKR
GC content30.47%
Information content (bits; total / per base)11.197 / 1.12
Data sourcesChIP-Seq
Aligned words971

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 6 (39) 0.924 0.958 0.872 0.924 0.905 0.943 3.569 4.101 478.495 639.921
Mouse 4 (26) 0.805 0.933 0.677 0.901 0.733 0.905 2.223 3.874 44.62 384.585

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 4 experiments median 0.732 0.665 0.695 0.638 0.649 0.609
best 0.778 0.704 0.74 0.674 0.7 0.646
Methyl HT-SELEX, 1 experiments median 0.778 0.704 0.74 0.674 0.7 0.646
best 0.778 0.704 0.74 0.674 0.7 0.646
Non-Methyl HT-SELEX, 3 experiments median 0.709 0.646 0.664 0.615 0.61 0.584
best 0.755 0.684 0.726 0.66 0.687 0.634

rSNP benchmarking, SNP-SELEX auROC auPRC Pearson r Kendall tau
batch 2 0.616 0.119 0.645 0.431
TF superclassHelix-turn-helix domains {3} (TFClass)
TF classHomeo domain factors {3.1} (TFClass)
TF familyHOX-related {3.1.1} (TFClass)
TF subfamilyPDX {3.1.1.15} (TFClass)
TFClass IDTFClass: 3.1.1.15.1
HGNCHGNC:6107
MGIMGI:102851
EntrezGene (human)GeneID:3651
(SSTAR profile)
EntrezGene (mouse)GeneID:18609
(SSTAR profile)
UniProt ID (human)PDX1_HUMAN
UniProt ID (mouse)PDX1_MOUSE
UniProt AC (human)P52945
(TFClass)
UniProt AC (mouse)P52946
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 6 human, 4 mouse
HT-SELEX 3
Methyl-HT-SELEX 1
PCM
ACGT
01172.02.023.0774.0
0239.07.0913.012.0
03921.022.08.020.0
0418.096.035.0822.0
05183.07.057.0724.0
06455.013.0487.016.0
07919.014.024.014.0
0835.035.070.0831.0
0962.041.0596.0272.0
10375.038.0471.087.0
PFM
ACGT
010.1770.0020.0240.797
020.040.0070.940.012
030.9490.0230.0080.021
040.0190.0990.0360.847
050.1880.0070.0590.746
060.4690.0130.5020.016
070.9460.0140.0250.014
080.0360.0360.0720.856
090.0640.0420.6140.28
100.3860.0390.4850.09
PWM
ACGT
01-0.342-4.185-2.2911.155
02-1.792-3.3341.32-2.88
031.328-2.333-3.225-2.421
04-2.517-0.917-1.8961.215
05-0.28-3.334-1.4261.088
060.625-2.810.693-2.624
071.326-2.744-2.252-2.744
08-1.896-1.896-1.2261.226
09-1.345-1.7440.8940.113
100.432-1.8170.659-1.014
Standard thresholds
P-value Threshold
0.001 4.41324
0.0005 5.323135
0.0001 7.18506