Motif | MSX2.H12CORE.0.SM.B |
Gene (human) | MSX2 (GeneCards) |
Gene synonyms (human) | HOX8 |
Gene (mouse) | Msx2 |
Gene synonyms (mouse) | Hox-8.1, Msx-2 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif | MSX2.H12CORE.0.SM.B |
Gene (human) | MSX2 (GeneCards) |
Gene synonyms (human) | HOX8 |
Gene (mouse) | Msx2 |
Gene synonyms (mouse) | Hox-8.1, Msx-2 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif length | 9 |
Consensus | nvYAATTAn |
GC content | 29.38% |
Information content (bits; total / per base) | 10.08 / 1.12 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 2301 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.873 | 0.861 | 0.803 | 0.799 | 0.763 | 0.761 |
best | 0.989 | 0.982 | 0.983 | 0.972 | 0.974 | 0.96 | |
Methyl HT-SELEX, 1 experiments | median | 0.982 | 0.971 | 0.974 | 0.958 | 0.961 | 0.94 |
best | 0.982 | 0.971 | 0.974 | 0.958 | 0.961 | 0.94 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.764 | 0.751 | 0.632 | 0.64 | 0.566 | 0.582 |
best | 0.989 | 0.982 | 0.983 | 0.972 | 0.974 | 0.96 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.649 | 0.052 | 0.526 | 0.32 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | NK-related {3.1.2} (TFClass) |
TF subfamily | MSX {3.1.2.11} (TFClass) |
TFClass ID | TFClass: 3.1.2.11.2 |
HGNC | HGNC:7392 |
MGI | MGI:97169 |
EntrezGene (human) | GeneID:4488 (SSTAR profile) |
EntrezGene (mouse) | GeneID:17702 (SSTAR profile) |
UniProt ID (human) | MSX2_HUMAN |
UniProt ID (mouse) | MSX2_MOUSE |
UniProt AC (human) | P35548 (TFClass) |
UniProt AC (mouse) | Q03358 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 3 |
Methyl-HT-SELEX | 1 |
PCM | MSX2.H12CORE.0.SM.B.pcm |
PWM | MSX2.H12CORE.0.SM.B.pwm |
PFM | MSX2.H12CORE.0.SM.B.pfm |
Alignment | MSX2.H12CORE.0.SM.B.words.tsv |
Threshold to P-value map | MSX2.H12CORE.0.SM.B.thr |
Motif in other formats | |
JASPAR format | MSX2.H12CORE.0.SM.B_jaspar_format.txt |
MEME format | MSX2.H12CORE.0.SM.B_meme_format.meme |
Transfac format | MSX2.H12CORE.0.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 666.25 | 667.25 | 558.25 | 409.25 |
02 | 274.25 | 1147.25 | 695.25 | 184.25 |
03 | 67.0 | 1390.0 | 167.0 | 677.0 |
04 | 2295.0 | 3.0 | 3.0 | 0.0 |
05 | 2283.0 | 17.0 | 1.0 | 0.0 |
06 | 0.0 | 22.0 | 0.0 | 2279.0 |
07 | 0.0 | 9.0 | 87.0 | 2205.0 |
08 | 2122.75 | 60.75 | 109.75 | 7.75 |
09 | 773.75 | 563.75 | 583.75 | 379.75 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.29 | 0.29 | 0.243 | 0.178 |
02 | 0.119 | 0.499 | 0.302 | 0.08 |
03 | 0.029 | 0.604 | 0.073 | 0.294 |
04 | 0.997 | 0.001 | 0.001 | 0.0 |
05 | 0.992 | 0.007 | 0.0 | 0.0 |
06 | 0.0 | 0.01 | 0.0 | 0.99 |
07 | 0.0 | 0.004 | 0.038 | 0.958 |
08 | 0.923 | 0.026 | 0.048 | 0.003 |
09 | 0.336 | 0.245 | 0.254 | 0.165 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.146 | 0.148 | -0.03 | -0.339 |
02 | -0.737 | 0.689 | 0.189 | -1.131 |
03 | -2.125 | 0.88 | -1.229 | 0.162 |
04 | 1.381 | -4.762 | -4.762 | -5.698 |
05 | 1.376 | -3.417 | -5.281 | -5.698 |
06 | -5.698 | -3.183 | -5.698 | 1.374 |
07 | -5.698 | -3.966 | -1.87 | 1.341 |
08 | 1.303 | -2.22 | -1.642 | -4.088 |
09 | 0.296 | -0.02 | 0.015 | -0.414 |
P-value | Threshold |
---|---|
0.001 | 4.72153 |
0.0005 | 5.889515 |
0.0001 | 7.80014 |