| Motif | LMX1B.H12INVIVO.2.S.B |
| Gene (human) | LMX1B (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Lmx1b |
| Gene synonyms (mouse) | |
| LOGO |  |
| LOGO (reverse complement) |  |
| Motif subtype | 2 |
| Quality | B |
| Motif | LMX1B.H12INVIVO.2.S.B |
| Gene (human) | LMX1B (GeneCards) |
| Gene synonyms (human) | |
| Gene (mouse) | Lmx1b |
| Gene synonyms (mouse) | |
| LOGO | |
| LOGO (reverse complement) | |
| Motif subtype | 2 |
| Quality | B |
| Motif length | 20 |
| Consensus | nvbTAATTARbhhhhWWddd |
| GC content | 22.82% |
| Information content (bits; total / per base) | 15.631 / 0.782 |
| Data sources | HT-SELEX |
| Aligned words | 9973 |
| 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) | 0.731 | 0.756 | 0.543 | 0.621 | 0.65 | 0.652 | 1.765 | 1.774 | 40.886 | 48.77 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 8 experiments | median | 0.98 | 0.964 | 0.967 | 0.948 | 0.888 | 0.879 |
| best | 0.986 | 0.974 | 0.984 | 0.971 | 0.977 | 0.959 | |
| Methyl HT-SELEX, 2 experiments | median | 0.983 | 0.969 | 0.979 | 0.964 | 0.952 | 0.936 |
| best | 0.986 | 0.974 | 0.984 | 0.971 | 0.973 | 0.959 | |
| Non-Methyl HT-SELEX, 6 experiments | median | 0.975 | 0.958 | 0.951 | 0.929 | 0.821 | 0.823 |
| best | 0.983 | 0.968 | 0.981 | 0.964 | 0.977 | 0.959 | |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 1 | 0.952 | 0.692 | 0.893 | 0.538 |
| batch 2 | 0.742 | 0.513 | 0.728 | 0.535 |
| 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.2.S.B.pcm |
| PWM | LMX1B.H12INVIVO.2.S.B.pwm |
| PFM | LMX1B.H12INVIVO.2.S.B.pfm |
| Alignment | LMX1B.H12INVIVO.2.S.B.words.tsv |
| Threshold to P-value map | LMX1B.H12INVIVO.2.S.B.thr |
| Motif in other formats | |
| JASPAR format | LMX1B.H12INVIVO.2.S.B_jaspar_format.txt |
| MEME format | LMX1B.H12INVIVO.2.S.B_meme_format.meme |
| Transfac format | LMX1B.H12INVIVO.2.S.B_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 2820.75 | 3647.75 | 1798.75 | 1705.75 |
| 02 | 3158.75 | 3865.75 | 1750.75 | 1197.75 |
| 03 | 270.0 | 4027.0 | 1408.0 | 4268.0 |
| 04 | 4.0 | 609.0 | 3.0 | 9357.0 |
| 05 | 9923.0 | 25.0 | 25.0 | 0.0 |
| 06 | 9966.0 | 1.0 | 6.0 | 0.0 |
| 07 | 0.0 | 7.0 | 1.0 | 9965.0 |
| 08 | 0.0 | 19.0 | 11.0 | 9943.0 |
| 09 | 9705.0 | 1.0 | 265.0 | 2.0 |
| 10 | 5926.0 | 1447.0 | 2501.0 | 99.0 |
| 11 | 845.0 | 2420.0 | 1495.0 | 5213.0 |
| 12 | 1900.0 | 1819.0 | 1582.0 | 4672.0 |
| 13 | 4762.0 | 1750.0 | 1452.0 | 2009.0 |
| 14 | 3927.0 | 1529.0 | 1170.0 | 3347.0 |
| 15 | 2485.0 | 1234.0 | 803.0 | 5451.0 |
| 16 | 3866.0 | 848.0 | 485.0 | 4774.0 |
| 17 | 5317.0 | 541.0 | 451.0 | 3664.0 |
| 18 | 4561.0 | 515.0 | 959.0 | 3938.0 |
| 19 | 3508.75 | 646.75 | 1391.75 | 4425.75 |
| 20 | 2889.0 | 826.0 | 2178.0 | 4080.0 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.283 | 0.366 | 0.18 | 0.171 |
| 02 | 0.317 | 0.388 | 0.176 | 0.12 |
| 03 | 0.027 | 0.404 | 0.141 | 0.428 |
| 04 | 0.0 | 0.061 | 0.0 | 0.938 |
| 05 | 0.995 | 0.003 | 0.003 | 0.0 |
| 06 | 0.999 | 0.0 | 0.001 | 0.0 |
| 07 | 0.0 | 0.001 | 0.0 | 0.999 |
| 08 | 0.0 | 0.002 | 0.001 | 0.997 |
| 09 | 0.973 | 0.0 | 0.027 | 0.0 |
| 10 | 0.594 | 0.145 | 0.251 | 0.01 |
| 11 | 0.085 | 0.243 | 0.15 | 0.523 |
| 12 | 0.191 | 0.182 | 0.159 | 0.468 |
| 13 | 0.477 | 0.175 | 0.146 | 0.201 |
| 14 | 0.394 | 0.153 | 0.117 | 0.336 |
| 15 | 0.249 | 0.124 | 0.081 | 0.547 |
| 16 | 0.388 | 0.085 | 0.049 | 0.479 |
| 17 | 0.533 | 0.054 | 0.045 | 0.367 |
| 18 | 0.457 | 0.052 | 0.096 | 0.395 |
| 19 | 0.352 | 0.065 | 0.14 | 0.444 |
| 20 | 0.29 | 0.083 | 0.218 | 0.409 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.123 | 0.38 | -0.326 | -0.379 |
| 02 | 0.236 | 0.438 | -0.353 | -0.732 |
| 03 | -2.215 | 0.479 | -0.571 | 0.537 |
| 04 | -5.981 | -1.407 | -6.154 | 1.322 |
| 05 | 1.381 | -4.515 | -4.515 | -6.989 |
| 06 | 1.385 | -6.628 | -5.706 | -6.989 |
| 07 | -6.989 | -5.592 | -6.628 | 1.385 |
| 08 | -6.989 | -4.763 | -5.234 | 1.383 |
| 09 | 1.358 | -6.628 | -2.234 | -6.363 |
| 10 | 0.865 | -0.543 | 0.003 | -3.204 |
| 11 | -1.08 | -0.03 | -0.511 | 0.737 |
| 12 | -0.271 | -0.315 | -0.454 | 0.628 |
| 13 | 0.647 | -0.354 | -0.54 | -0.216 |
| 14 | 0.454 | -0.488 | -0.756 | 0.294 |
| 15 | -0.003 | -0.702 | -1.131 | 0.782 |
| 16 | 0.438 | -1.077 | -1.633 | 0.649 |
| 17 | 0.757 | -1.525 | -1.706 | 0.385 |
| 18 | 0.604 | -1.574 | -0.954 | 0.457 |
| 19 | 0.341 | -1.347 | -0.582 | 0.573 |
| 20 | 0.147 | -1.103 | -0.135 | 0.492 |
| P-value | Threshold |
|---|---|
| 0.001 | 0.96291 |
| 0.0005 | 2.60706 |
| 0.0001 | 6.14366 |