MotifVSX2.H12INVITRO.0.PSM.A
Gene (human)VSX2
(GeneCards)
Gene synonyms (human)CHX10, HOX10
Gene (mouse)Vsx2
Gene synonyms (mouse)Chx10
LOGO
LOGO (reverse complement)
Motif subtype0
Quality
A
Motif length12
ConsensusvbTAATTAGChn
GC content37.24%
Information content (bits; total / per base)15.443 / 1.287
Data sourcesChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words9856

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
Mouse 1 (7) 0.989 0.993 0.982 0.99 0.984 0.988 5.837 5.926 399.569 446.523

HT-SELEX benchmarking auROC10 auPRC10 auROC25 auPRC25 auROC50 auPRC50
Overall, 6 experiments median 0.998 0.997 0.995 0.993 0.979 0.973
best 0.999 0.998 0.999 0.998 0.997 0.995
Methyl HT-SELEX, 2 experiments median 0.992 0.986 0.988 0.98 0.97 0.96
best 0.999 0.998 0.999 0.998 0.997 0.995
Non-Methyl HT-SELEX, 4 experiments median 0.998 0.997 0.995 0.993 0.979 0.973
best 0.998 0.997 0.996 0.994 0.992 0.988

rSNP benchmarking, SNP-SELEX auROC auPRC Pearson r Kendall tau
batch 1 0.959 0.383 0.95 0.642
batch 2 0.863 0.686 0.879 0.673
TF superclassHelix-turn-helix domains {3} (TFClass)
TF classHomeo domain factors {3.1} (TFClass)
TF familyPaired-related HD {3.1.3} (TFClass)
TF subfamilyVSX {3.1.3.28} (TFClass)
TFClass IDTFClass: 3.1.3.28.2
HGNCHGNC:1975
MGIMGI:88401
EntrezGene (human)GeneID:338917
(SSTAR profile)
EntrezGene (mouse)GeneID:12677
(SSTAR profile)
UniProt ID (human)VSX2_HUMAN
UniProt ID (mouse)VSX2_MOUSE
UniProt AC (human)P58304
(TFClass)
UniProt AC (mouse)Q61412
(TFClass)
GRECO-DB-TF
yes
ChIP-Seq 0 human, 1 mouse
HT-SELEX 4
Methyl-HT-SELEX 2
PCM
ACGT
011963.03249.03403.01241.0
02827.55349.52153.51525.5
03129.0512.030.09185.0
049781.05.069.01.0
059856.00.00.00.0
060.00.00.09856.0
070.00.00.09856.0
089746.00.0110.00.0
0978.0276.09500.02.0
1023.09089.0530.0214.0
111012.754554.75894.753393.75
122994.252439.251879.252543.25
PFM
ACGT
010.1990.330.3450.126
020.0840.5430.2180.155
030.0130.0520.0030.932
040.9920.0010.0070.0
051.00.00.00.0
060.00.00.01.0
070.00.00.01.0
080.9890.00.0110.0
090.0080.0280.9640.0
100.0020.9220.0540.022
110.1030.4620.0910.344
120.3040.2470.1910.258
PWM
ACGT
01-0.2270.2760.323-0.685
02-1.0890.775-0.135-0.479
03-2.933-1.568-4.3351.315
041.378-5.823-3.544-6.617
051.386-6.978-6.978-6.978
06-6.978-6.978-6.9781.386
07-6.978-6.978-6.9781.386
081.374-6.978-3.089-6.978
09-3.425-2.1821.349-6.352
10-4.581.305-1.533-2.434
11-0.8880.614-1.0110.32
120.195-0.01-0.2710.032
Standard thresholds
P-value Threshold
0.001 0.29607
0.0005 2.18292
0.0001 5.89491