Motif | HXB13.H12CORE.0.PS.A |
Gene (human) | HOXB13 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Hoxb13 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | A |
Motif | HXB13.H12CORE.0.PS.A |
Gene (human) | HOXB13 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Hoxb13 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | A |
Motif length | 12 |
Consensus | nKTTTAYKRGbn |
GC content | 37.9% |
Information content (bits; total / per base) | 11.565 / 0.964 |
Data sources | ChIP-Seq + HT-SELEX |
Aligned words | 9981 |
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 | 21 (108) | 0.844 | 0.948 | 0.708 | 0.886 | 0.779 | 0.904 | 2.254 | 3.234 | 81.293 | 391.31 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.983 | 0.973 | 0.952 | 0.938 | 0.869 | 0.867 |
best | 0.997 | 0.995 | 0.993 | 0.99 | 0.984 | 0.978 | |
Methyl HT-SELEX, 1 experiments | median | 0.997 | 0.995 | 0.993 | 0.99 | 0.984 | 0.978 |
best | 0.997 | 0.995 | 0.993 | 0.99 | 0.984 | 0.978 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.972 | 0.958 | 0.918 | 0.897 | 0.77 | 0.777 |
best | 0.993 | 0.988 | 0.987 | 0.98 | 0.969 | 0.957 |
rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
---|---|---|---|---|
# | 20.559 | 8.796 | 0.325 | 0.215 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | HOX-related {3.1.1} (TFClass) |
TF subfamily | HOX9-13 {3.1.1.8} (TFClass) |
TFClass ID | TFClass: 3.1.1.8.15 |
HGNC | HGNC:5112 |
MGI | MGI:107730 |
EntrezGene (human) | GeneID:10481 (SSTAR profile) |
EntrezGene (mouse) | GeneID:15408 (SSTAR profile) |
UniProt ID (human) | HXB13_HUMAN |
UniProt ID (mouse) | HXB13_MOUSE |
UniProt AC (human) | Q92826 (TFClass) |
UniProt AC (mouse) | P70321 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 21 human, 0 mouse |
HT-SELEX | 3 |
Methyl-HT-SELEX | 1 |
PCM | HXB13.H12CORE.0.PS.A.pcm |
PWM | HXB13.H12CORE.0.PS.A.pwm |
PFM | HXB13.H12CORE.0.PS.A.pfm |
Alignment | HXB13.H12CORE.0.PS.A.words.tsv |
Threshold to P-value map | HXB13.H12CORE.0.PS.A.thr |
Motif in other formats | |
JASPAR format | HXB13.H12CORE.0.PS.A_jaspar_format.txt |
MEME format | HXB13.H12CORE.0.PS.A_meme_format.meme |
Transfac format | HXB13.H12CORE.0.PS.A_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2121.5 | 1719.5 | 3482.5 | 2657.5 |
02 | 948.25 | 856.25 | 1983.25 | 6193.25 |
03 | 159.0 | 92.0 | 189.0 | 9541.0 |
04 | 164.0 | 33.0 | 34.0 | 9750.0 |
05 | 864.0 | 43.0 | 21.0 | 9053.0 |
06 | 9962.0 | 3.0 | 4.0 | 12.0 |
07 | 30.0 | 4886.0 | 1.0 | 5064.0 |
08 | 413.0 | 22.0 | 7173.0 | 2373.0 |
09 | 6285.0 | 75.0 | 3505.0 | 116.0 |
10 | 263.0 | 1037.0 | 8147.0 | 534.0 |
11 | 1379.5 | 3284.5 | 3560.5 | 1756.5 |
12 | 1598.25 | 2819.25 | 2423.25 | 3140.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.213 | 0.172 | 0.349 | 0.266 |
02 | 0.095 | 0.086 | 0.199 | 0.621 |
03 | 0.016 | 0.009 | 0.019 | 0.956 |
04 | 0.016 | 0.003 | 0.003 | 0.977 |
05 | 0.087 | 0.004 | 0.002 | 0.907 |
06 | 0.998 | 0.0 | 0.0 | 0.001 |
07 | 0.003 | 0.49 | 0.0 | 0.507 |
08 | 0.041 | 0.002 | 0.719 | 0.238 |
09 | 0.63 | 0.008 | 0.351 | 0.012 |
10 | 0.026 | 0.104 | 0.816 | 0.054 |
11 | 0.138 | 0.329 | 0.357 | 0.176 |
12 | 0.16 | 0.282 | 0.243 | 0.315 |
A | C | G | T | |
---|---|---|---|---|
01 | -0.162 | -0.372 | 0.333 | 0.063 |
02 | -0.966 | -1.068 | -0.229 | 0.909 |
03 | -2.74 | -3.277 | -2.569 | 1.341 |
04 | -2.709 | -4.259 | -4.231 | 1.362 |
05 | -1.059 | -4.01 | -4.675 | 1.288 |
06 | 1.384 | -6.155 | -5.982 | -5.163 |
07 | -4.348 | 0.672 | -6.629 | 0.707 |
08 | -1.794 | -4.633 | 1.055 | -0.05 |
09 | 0.923 | -3.475 | 0.34 | -3.05 |
10 | -2.242 | -0.877 | 1.183 | -1.538 |
11 | -0.592 | 0.275 | 0.355 | -0.351 |
12 | -0.445 | 0.122 | -0.029 | 0.23 |
P-value | Threshold |
---|---|
0.001 | 4.09236 |
0.0005 | 5.217065 |
0.0001 | 7.48429 |