| Motif | MSX2.H12INVIVO.0.SM.D |
| 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 | D |
| Motif | MSX2.H12INVIVO.0.SM.D |
| 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 | D |
| 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.H12INVIVO.0.SM.D.pcm |
| PWM | MSX2.H12INVIVO.0.SM.D.pwm |
| PFM | MSX2.H12INVIVO.0.SM.D.pfm |
| Alignment | MSX2.H12INVIVO.0.SM.D.words.tsv |
| Threshold to P-value map | MSX2.H12INVIVO.0.SM.D.thr |
| Motif in other formats | |
| JASPAR format | MSX2.H12INVIVO.0.SM.D_jaspar_format.txt |
| MEME format | MSX2.H12INVIVO.0.SM.D_meme_format.meme |
| Transfac format | MSX2.H12INVIVO.0.SM.D_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 |