Motif | HXB13.H12CORE.1.SM.B |
Gene (human) | HOXB13 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Hoxb13 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif | HXB13.H12CORE.1.SM.B |
Gene (human) | HOXB13 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Hoxb13 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif length | 12 |
Consensus | ndTTTACGAGvn |
GC content | 41.55% |
Information content (bits; total / per base) | 14.45 / 1.204 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 7712 |
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) | 0.785 | 0.855 | 0.646 | 0.751 | 0.708 | 0.769 | 1.981 | 2.471 | 45.551 | 165.77 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.967 | 0.958 | 0.919 | 0.904 | 0.837 | 0.83 |
best | 0.999 | 0.998 | 0.998 | 0.997 | 0.992 | 0.989 | |
Methyl HT-SELEX, 1 experiments | median | 0.999 | 0.998 | 0.998 | 0.997 | 0.992 | 0.989 |
best | 0.999 | 0.998 | 0.998 | 0.997 | 0.992 | 0.989 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.938 | 0.922 | 0.852 | 0.827 | 0.734 | 0.729 |
best | 0.996 | 0.994 | 0.986 | 0.981 | 0.94 | 0.931 |
rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
---|---|---|---|---|
# | 5.333 | 4.488 | 0.25 | 0.119 |
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.1.SM.B.pcm |
PWM | HXB13.H12CORE.1.SM.B.pwm |
PFM | HXB13.H12CORE.1.SM.B.pfm |
Alignment | HXB13.H12CORE.1.SM.B.words.tsv |
Threshold to P-value map | HXB13.H12CORE.1.SM.B.thr |
Motif in other formats | |
JASPAR format | HXB13.H12CORE.1.SM.B_jaspar_format.txt |
MEME format | HXB13.H12CORE.1.SM.B_meme_format.meme |
Transfac format | HXB13.H12CORE.1.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2070.25 | 1288.25 | 2795.25 | 1558.25 |
02 | 1417.0 | 608.0 | 2032.0 | 3655.0 |
03 | 85.0 | 24.0 | 132.0 | 7471.0 |
04 | 29.0 | 7.0 | 9.0 | 7667.0 |
05 | 447.0 | 3.0 | 1.0 | 7261.0 |
06 | 7712.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 7027.0 | 0.0 | 685.0 |
08 | 53.0 | 2.0 | 7603.0 | 54.0 |
09 | 7496.0 | 35.0 | 148.0 | 33.0 |
10 | 32.0 | 459.0 | 6859.0 | 362.0 |
11 | 1146.25 | 2585.25 | 3021.25 | 959.25 |
12 | 1573.75 | 1700.75 | 2107.75 | 2329.75 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.268 | 0.167 | 0.362 | 0.202 |
02 | 0.184 | 0.079 | 0.263 | 0.474 |
03 | 0.011 | 0.003 | 0.017 | 0.969 |
04 | 0.004 | 0.001 | 0.001 | 0.994 |
05 | 0.058 | 0.0 | 0.0 | 0.942 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.911 | 0.0 | 0.089 |
08 | 0.007 | 0.0 | 0.986 | 0.007 |
09 | 0.972 | 0.005 | 0.019 | 0.004 |
10 | 0.004 | 0.06 | 0.889 | 0.047 |
11 | 0.149 | 0.335 | 0.392 | 0.124 |
12 | 0.204 | 0.221 | 0.273 | 0.302 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.071 | -0.403 | 0.371 | -0.213 |
02 | -0.308 | -1.152 | 0.052 | 0.639 |
03 | -3.097 | -4.298 | -2.666 | 1.354 |
04 | -4.124 | -5.342 | -5.146 | 1.38 |
05 | -1.458 | -5.91 | -6.391 | 1.325 |
06 | 1.385 | -6.76 | -6.76 | -6.76 |
07 | -6.76 | 1.292 | -6.76 | -1.033 |
08 | -3.554 | -6.121 | 1.371 | -3.536 |
09 | 1.357 | -3.948 | -2.553 | -4.003 |
10 | -4.032 | -1.431 | 1.268 | -1.668 |
11 | -0.519 | 0.293 | 0.449 | -0.697 |
12 | -0.203 | -0.125 | 0.089 | 0.189 |
P-value | Threshold |
---|---|
0.001 | 1.99167 |
0.0005 | 3.449285 |
0.0001 | 6.483895 |