MotifLHX4.H12INVIVO.0.SM.D
Gene (human)LHX4
(GeneCards)
Gene synonyms (human)
Gene (mouse)Lhx4
Gene synonyms (mouse)Gsh-4, Gsh4
LOGO
LOGO (reverse complement)
Motif subtype0
Quality
D
Motif length12
ConsensusnbYAATTARbnn
GC content30.5%
Information content (bits; total / per base)11.529 / 0.961
Data sourcesHT-SELEX + Methyl-HT-SELEX
Aligned words8107

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 6 experiments median 0.945 0.911 0.912 0.874 0.828 0.8
best 0.98 0.968 0.956 0.938 0.85 0.845
Methyl HT-SELEX, 2 experiments median 0.962 0.94 0.93 0.901 0.84 0.82
best 0.962 0.941 0.931 0.901 0.845 0.822
Non-Methyl HT-SELEX, 4 experiments median 0.802 0.77 0.736 0.715 0.676 0.665
best 0.98 0.968 0.956 0.938 0.85 0.845

rSNP benchmarking, SNP-SELEX auROC auPRC Pearson r Kendall tau
batch 2 0.802 0.633 0.824 0.628
TF superclassHelix-turn-helix domains {3} (TFClass)
TF classHomeo domain factors {3.1} (TFClass)
TF familyHD-LIM {3.1.5} (TFClass)
TF subfamilyLHX3-like {3.1.5.4} (TFClass)
TFClass IDTFClass: 3.1.5.4.2
HGNCHGNC:21734
MGIMGI:101776
EntrezGene (human)GeneID:89884
(SSTAR profile)
EntrezGene (mouse)GeneID:16872
(SSTAR profile)
UniProt ID (human)LHX4_HUMAN
UniProt ID (mouse)LHX4_MOUSE
UniProt AC (human)Q969G2
(TFClass)
UniProt AC (mouse)P53776
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 0 human, 0 mouse
HT-SELEX 4
Methyl-HT-SELEX 2
PCM
ACGT
011846.02156.01961.02144.0
021060.752384.753071.751589.75
03164.02181.078.05684.0
047396.021.0690.00.0
058107.00.00.00.0
060.00.00.08107.0
070.00.00.08107.0
088107.00.00.00.0
094186.0914.02954.053.0
10380.03008.01512.03207.0
111413.751976.752904.751811.75
122374.01983.01871.01879.0
PFM
ACGT
010.2280.2660.2420.264
020.1310.2940.3790.196
030.020.2690.010.701
040.9120.0030.0850.0
051.00.00.00.0
060.00.00.01.0
070.00.00.01.0
081.00.00.00.0
090.5160.1130.3640.007
100.0470.3710.1870.396
110.1740.2440.3580.223
120.2930.2450.2310.232
PWM
ACGT
01-0.0930.062-0.0330.056
02-0.6460.1620.415-0.243
03-2.5020.073-3.231.031
041.294-4.469-1.075-6.804
051.385-6.804-6.804-6.804
06-6.804-6.804-6.8041.385
07-6.804-6.804-6.8041.385
081.385-6.804-6.804-6.804
090.725-0.7950.376-3.603
10-1.6690.394-0.2930.458
11-0.36-0.0250.36-0.112
120.158-0.022-0.08-0.076
Standard thresholds
P-value Threshold
0.001 3.350265
0.0005 5.276935
0.0001 7.96596