| Motif | MSX2.H12RSNP.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.H12RSNP.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 | 29.9% |
| Information content (bits; total / per base) | 10.33 / 1.148 |
| Data sources | HT-SELEX + Methyl-HT-SELEX |
| Aligned words | 8611 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 4 experiments | median | 0.87 | 0.859 | 0.797 | 0.795 | 0.76 | 0.759 |
| best | 0.987 | 0.98 | 0.982 | 0.97 | 0.975 | 0.96 | |
| Methyl HT-SELEX, 1 experiments | median | 0.98 | 0.968 | 0.973 | 0.956 | 0.961 | 0.94 |
| best | 0.98 | 0.968 | 0.973 | 0.956 | 0.961 | 0.94 | |
| Non-Methyl HT-SELEX, 3 experiments | median | 0.76 | 0.749 | 0.622 | 0.634 | 0.558 | 0.577 |
| best | 0.987 | 0.98 | 0.982 | 0.97 | 0.975 | 0.96 | |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 2 | 0.654 | 0.07 | 0.585 | 0.367 |
| 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.H12RSNP.0.SM.B.pcm |
| PWM | MSX2.H12RSNP.0.SM.B.pwm |
| PFM | MSX2.H12RSNP.0.SM.B.pfm |
| Alignment | MSX2.H12RSNP.0.SM.B.words.tsv |
| Threshold to P-value map | MSX2.H12RSNP.0.SM.B.thr |
| Motif in other formats | |
| JASPAR format | MSX2.H12RSNP.0.SM.B_jaspar_format.txt |
| MEME format | MSX2.H12RSNP.0.SM.B_meme_format.meme |
| Transfac format | MSX2.H12RSNP.0.SM.B_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 2640.0 | 2196.0 | 2241.0 | 1534.0 |
| 02 | 1044.75 | 4046.75 | 2752.75 | 766.75 |
| 03 | 336.0 | 6077.0 | 595.0 | 1603.0 |
| 04 | 8596.0 | 0.0 | 14.0 | 1.0 |
| 05 | 8592.0 | 19.0 | 0.0 | 0.0 |
| 06 | 0.0 | 1.0 | 0.0 | 8610.0 |
| 07 | 0.0 | 71.0 | 47.0 | 8493.0 |
| 08 | 7776.5 | 323.5 | 435.5 | 75.5 |
| 09 | 2710.5 | 2179.5 | 2172.5 | 1548.5 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.307 | 0.255 | 0.26 | 0.178 |
| 02 | 0.121 | 0.47 | 0.32 | 0.089 |
| 03 | 0.039 | 0.706 | 0.069 | 0.186 |
| 04 | 0.998 | 0.0 | 0.002 | 0.0 |
| 05 | 0.998 | 0.002 | 0.0 | 0.0 |
| 06 | 0.0 | 0.0 | 0.0 | 1.0 |
| 07 | 0.0 | 0.008 | 0.005 | 0.986 |
| 08 | 0.903 | 0.038 | 0.051 | 0.009 |
| 09 | 0.315 | 0.253 | 0.252 | 0.18 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.204 | 0.02 | 0.04 | -0.338 |
| 02 | -0.722 | 0.631 | 0.246 | -1.03 |
| 03 | -1.852 | 1.037 | -1.283 | -0.295 |
| 04 | 1.384 | -6.858 | -4.887 | -6.492 |
| 05 | 1.383 | -4.618 | -6.858 | -6.858 |
| 06 | -6.858 | -6.492 | -6.858 | 1.385 |
| 07 | -6.858 | -3.381 | -3.778 | 1.372 |
| 08 | 1.284 | -1.889 | -1.594 | -3.322 |
| 09 | 0.23 | 0.012 | 0.009 | -0.329 |
| P-value | Threshold |
|---|---|
| 0.001 | 4.689785 |
| 0.0005 | 5.82254 |
| 0.0001 | 7.813285 |