| Motif | LMX1B.H12INVIVO.0.P.C |
| Gene (human) | LMX1B (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Lmx1b |
| Gene synonyms (mouse) | |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 0 |
| Quality | C |
| Motif | LMX1B.H12INVIVO.0.P.C |
| Gene (human) | LMX1B (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Lmx1b |
| Gene synonyms (mouse) | |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 0 |
| Quality | C |
| Motif length | 8 |
| Consensus | YMATdAAA |
| GC content | 12.93% |
| Information content (bits; total / per base) | 10.032 / 1.254 |
| Data sources | ChIP-Seq |
| Aligned words | 1008 |
| 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 (6) | 0.733 | 0.752 | 0.579 | 0.658 | 0.731 | 0.747 | 2.017 | 2.042 | 38.092 | 44.658 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 8 experiments | median | 0.958 | 0.939 | 0.905 | 0.88 | 0.823 | 0.805 |
| best | 0.994 | 0.988 | 0.986 | 0.979 | 0.954 | 0.94 | |
| Methyl HT-SELEX, 2 experiments | median | 0.993 | 0.987 | 0.958 | 0.949 | 0.913 | 0.896 |
| best | 0.994 | 0.988 | 0.965 | 0.956 | 0.944 | 0.923 | |
| Non-Methyl HT-SELEX, 6 experiments | median | 0.911 | 0.878 | 0.848 | 0.805 | 0.744 | 0.725 |
| best | 0.993 | 0.988 | 0.986 | 0.979 | 0.954 | 0.94 | |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 1 | 0.821 | 0.272 | 0.881 | 0.593 |
| batch 2 | 0.694 | 0.439 | 0.78 | 0.553 |
| TF superclass | Helix-turn-helix domains {3} (TFClass) |
| TF class | Homeo domain factors {3.1} (TFClass) |
| TF family | HD-LIM {3.1.5} (TFClass) |
| TF subfamily | LMX {3.1.5.6} (TFClass) |
| TFClass ID | TFClass: 3.1.5.6.2 |
| HGNC | HGNC:6654 |
| MGI | MGI:1100513 |
| EntrezGene (human) | GeneID:4010 (SSTAR profile) |
| EntrezGene (mouse) | GeneID:16917 (SSTAR profile) |
| UniProt ID (human) | LMX1B_HUMAN |
| UniProt ID (mouse) | LMX1B_MOUSE |
| UniProt AC (human) | O60663 (TFClass) |
| UniProt AC (mouse) | O88609 (TFClass) |
| GRECO-DB-TF | yes |
| ChIP-Seq | 0 human, 1 mouse |
| HT-SELEX | 6 |
| Methyl-HT-SELEX | 2 |
| PCM | LMX1B.H12INVIVO.0.P.C.pcm |
| PWM | LMX1B.H12INVIVO.0.P.C.pwm |
| PFM | LMX1B.H12INVIVO.0.P.C.pfm |
| Alignment | LMX1B.H12INVIVO.0.P.C.words.tsv |
| Threshold to P-value map | LMX1B.H12INVIVO.0.P.C.thr |
| Motif in other formats | |
| JASPAR format | LMX1B.H12INVIVO.0.P.C_jaspar_format.txt |
| MEME format | LMX1B.H12INVIVO.0.P.C_meme_format.meme |
| Transfac format | LMX1B.H12INVIVO.0.P.C_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 148.0 | 227.0 | 12.0 | 621.0 |
| 02 | 783.0 | 130.0 | 36.0 | 59.0 |
| 03 | 989.0 | 12.0 | 6.0 | 1.0 |
| 04 | 8.25 | 7.25 | 27.25 | 965.25 |
| 05 | 194.25 | 39.25 | 361.25 | 413.25 |
| 06 | 977.25 | 3.25 | 21.25 | 6.25 |
| 07 | 957.25 | 15.25 | 34.25 | 1.25 |
| 08 | 874.25 | 43.25 | 67.25 | 23.25 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.147 | 0.225 | 0.012 | 0.616 |
| 02 | 0.777 | 0.129 | 0.036 | 0.059 |
| 03 | 0.981 | 0.012 | 0.006 | 0.001 |
| 04 | 0.008 | 0.007 | 0.027 | 0.958 |
| 05 | 0.193 | 0.039 | 0.358 | 0.41 |
| 06 | 0.969 | 0.003 | 0.021 | 0.006 |
| 07 | 0.95 | 0.015 | 0.034 | 0.001 |
| 08 | 0.867 | 0.043 | 0.067 | 0.023 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | -0.527 | -0.104 | -2.917 | 0.898 |
| 02 | 1.129 | -0.656 | -1.906 | -1.43 |
| 03 | 1.362 | -2.917 | -3.491 | -4.532 |
| 04 | -3.236 | -3.341 | -2.17 | 1.338 |
| 05 | -0.258 | -1.823 | 0.358 | 0.492 |
| 06 | 1.35 | -3.931 | -2.402 | -3.459 |
| 07 | 1.33 | -2.704 | -1.953 | -4.445 |
| 08 | 1.239 | -1.73 | -1.302 | -2.318 |
| P-value | Threshold |
|---|---|
| 0.001 | 4.782235 |
| 0.0005 | 5.589145 |
| 0.0001 | 7.499125 |