| Motif | LMX1B.H12INVITRO.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.H12INVITRO.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 | YAATdAAR |
| GC content | 15.1% |
| Information content (bits; total / per base) | 9.921 / 1.24 |
| Data sources | ChIP-Seq |
| Aligned words | 1007 |
| 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 | 0.755 | 0.584 | 0.656 | 0.733 | 0.743 | 2.024 | 2.081 | 41.886 | 48.444 |
| HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
|---|---|---|---|---|---|---|---|
| Overall, 8 experiments | median | 0.941 | 0.905 | 0.919 | 0.881 | 0.847 | 0.819 |
| best | 0.984 | 0.964 | 0.979 | 0.96 | 0.96 | 0.939 | |
| Methyl HT-SELEX, 2 experiments | median | 0.979 | 0.958 | 0.965 | 0.945 | 0.922 | 0.9 |
| best | 0.984 | 0.964 | 0.973 | 0.954 | 0.95 | 0.927 | |
| Non-Methyl HT-SELEX, 6 experiments | median | 0.904 | 0.85 | 0.872 | 0.816 | 0.778 | 0.748 |
| best | 0.975 | 0.954 | 0.979 | 0.96 | 0.96 | 0.939 | |
| rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
|---|---|---|---|---|
| batch 1 | 0.851 | 0.256 | 0.882 | 0.592 |
| batch 2 | 0.682 | 0.445 | 0.775 | 0.548 |
| 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.H12INVITRO.0.P.C.pcm |
| PWM | LMX1B.H12INVITRO.0.P.C.pwm |
| PFM | LMX1B.H12INVITRO.0.P.C.pfm |
| Alignment | LMX1B.H12INVITRO.0.P.C.words.tsv |
| Threshold to P-value map | LMX1B.H12INVITRO.0.P.C.thr |
| Motif in other formats | |
| JASPAR format | LMX1B.H12INVITRO.0.P.C_jaspar_format.txt |
| MEME format | LMX1B.H12INVITRO.0.P.C_meme_format.meme |
| Transfac format | LMX1B.H12INVITRO.0.P.C_transfac_format.txt |
| Homer format | |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 141.0 | 176.0 | 19.0 | 671.0 |
| 02 | 943.0 | 11.0 | 38.0 | 15.0 |
| 03 | 985.0 | 9.0 | 6.0 | 7.0 |
| 04 | 9.25 | 5.25 | 27.25 | 965.25 |
| 05 | 199.25 | 39.25 | 483.25 | 285.25 |
| 06 | 955.25 | 5.25 | 40.25 | 6.25 |
| 07 | 875.25 | 19.25 | 107.25 | 5.25 |
| 08 | 745.25 | 56.25 | 174.25 | 31.25 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | 0.14 | 0.175 | 0.019 | 0.666 |
| 02 | 0.936 | 0.011 | 0.038 | 0.015 |
| 03 | 0.978 | 0.009 | 0.006 | 0.007 |
| 04 | 0.009 | 0.005 | 0.027 | 0.959 |
| 05 | 0.198 | 0.039 | 0.48 | 0.283 |
| 06 | 0.949 | 0.005 | 0.04 | 0.006 |
| 07 | 0.869 | 0.019 | 0.107 | 0.005 |
| 08 | 0.74 | 0.056 | 0.173 | 0.031 |
| A | C | G | T | |
|---|---|---|---|---|
| 01 | -0.574 | -0.355 | -2.504 | 0.976 |
| 02 | 1.316 | -2.991 | -1.853 | -2.718 |
| 03 | 1.359 | -3.162 | -3.49 | -3.369 |
| 04 | -3.139 | -3.592 | -2.169 | 1.339 |
| 05 | -0.232 | -1.822 | 0.649 | 0.124 |
| 06 | 1.329 | -3.592 | -1.798 | -3.459 |
| 07 | 1.241 | -2.492 | -0.844 | -3.592 |
| 08 | 1.081 | -1.475 | -0.365 | -2.039 |
| P-value | Threshold |
|---|---|
| 0.001 | 4.724845 |
| 0.0005 | 5.63559 |
| 0.0001 | 7.3974 |