| Motif | SOX2.H12INVIVO.2.S.B |
| Gene (human) | SOX2 (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Sox2 |
| Gene synonyms (mouse) | Sox-2 |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 2 |
| Quality | B |
| Motif | SOX2.H12INVIVO.2.S.B |
| Gene (human) | SOX2 (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Sox2 |
| Gene synonyms (mouse) | Sox-2 |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 2 |
| Quality | B |
| Motif length | 8 |
| Consensus | nYATTCdn |
| GC content | 37.26% |
| Information content (bits; total / per base) | 7.738 / 0.967 |
| Data sources | HT-SELEX |
| Aligned words | 6014 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Human | 38 (216) | 0.602 | 0.733 | 0.404 | 0.57 | 0.606 | 0.716 | 1.329 | 1.742 | 6.025 | 31.959 |
| Mouse | 116 (745) | 0.627 | 0.758 | 0.435 | 0.568 | 0.59 | 0.72 | 1.255 | 1.808 | 6.824 | 24.921 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Non-Methyl HT-SELEX, 5 experiments | median | 0.606 | 0.568 | 0.571 | 0.549 | 0.542 | 0.534 |
| best | 0.651 | 0.612 | 0.581 | 0.568 | 0.544 | 0.542 | |
| TF superclass | Other all-alpha-helical DNA-binding domains {4} (TFClass) |
| TF class | High-mobility group (HMG) domain factors {4.1} (TFClass) |
| TF family | SOX-related {4.1.1} (TFClass) |
| TF subfamily | Group B {4.1.1.2} (TFClass) |
| TFClass ID | TFClass: 4.1.1.2.2 |
| HGNC | HGNC:11195 |
| MGI | MGI:98364 |
| EntrezGene (human) | GeneID:6657 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:20674 (SSTAR profile) |
| UniProt ID (human) | SOX2_HUMAN |
| UniProt ID (mouse) | SOX2_MOUSE |
| UniProt AC (human) | P48431 (TFClass) |
| UniProt AC (mouse) | P48432 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 38 human, 116 mouse |
| HT-SELEX | 5 |
| Methyl-HT-SELEX | 0 |
| PCM | SOX2.H12INVIVO.2.S.B.pcm |
| PWM | SOX2.H12INVIVO.2.S.B.pwm |
| PFM | SOX2.H12INVIVO.2.S.B.pfm |
| Alignment | SOX2.H12INVIVO.2.S.B.words.tsv |
| Threshold to P-value map | SOX2.H12INVIVO.2.S.B.thr |
| Motif in other formats | |
| JASPAR format | SOX2.H12INVIVO.2.S.B_jaspar_format.txt |
| MEME format | SOX2.H12INVIVO.2.S.B_meme_format.meme |
| Transfac format | SOX2.H12INVIVO.2.S.B_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 1800.5 | 1294.5 | 841.5 | 2077.5 |
| 02 | 787.0 | 4219.0 | 0.0 | 1008.0 |
| 03 | 5743.0 | 26.0 | 0.0 | 245.0 |
| 04 | 0.0 | 379.0 | 0.0 | 5635.0 |
| 05 | 0.0 | 0.0 | 0.0 | 6014.0 |
| 06 | 0.0 | 4851.0 | 1163.0 | 0.0 |
| 07 | 2157.25 | 928.25 | 1043.25 | 1885.25 |
| 08 | 1128.5 | 2232.5 | 948.5 | 1704.5 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.299 | 0.215 | 0.14 | 0.345 |
| 02 | 0.131 | 0.702 | 0.0 | 0.168 |
| 03 | 0.955 | 0.004 | 0.0 | 0.041 |
| 04 | 0.0 | 0.063 | 0.0 | 0.937 |
| 05 | 0.0 | 0.0 | 0.0 | 1.0 |
| 06 | 0.0 | 0.807 | 0.193 | 0.0 |
| 07 | 0.359 | 0.154 | 0.173 | 0.313 |
| 08 | 0.188 | 0.371 | 0.158 | 0.283 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.18 | -0.149 | -0.579 | 0.323 |
| 02 | -0.646 | 1.031 | -6.54 | -0.399 |
| 03 | 1.339 | -3.979 | -6.54 | -1.807 |
| 04 | -6.54 | -1.374 | -6.54 | 1.32 |
| 05 | -6.54 | -6.54 | -6.54 | 1.385 |
| 06 | -6.54 | 1.17 | -0.256 | -6.54 |
| 07 | 0.361 | -0.481 | -0.365 | 0.226 |
| 08 | -0.286 | 0.395 | -0.46 | 0.125 |
| P-value | Threshold |
|---|---|
| 0.001 | 5.49277 |
| 0.0005 | 6.057725 |
| 0.0001 | 6.88561 |