Motif | PHX2B.H12CORE.1.SM.B |
Gene (human) | PHOX2B (GeneCards) |
Gene synonyms (human) | PMX2B |
Gene (mouse) | Phox2b |
Gene synonyms (mouse) | Pmx2b |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif | PHX2B.H12CORE.1.SM.B |
Gene (human) | PHOX2B (GeneCards) |
Gene synonyms (human) | PMX2B |
Gene (mouse) | Phox2b |
Gene synonyms (mouse) | Pmx2b |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif length | 11 |
Consensus | nvbTAATTvvn |
GC content | 31.28% |
Information content (bits; total / per base) | 10.654 / 0.969 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 7097 |
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 | 3 (21) | 0.864 | 0.948 | 0.765 | 0.902 | 0.688 | 0.805 | 1.732 | 2.206 | 103.824 | 136.268 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 8 experiments | median | 0.955 | 0.926 | 0.925 | 0.893 | 0.842 | 0.801 |
best | 0.978 | 0.959 | 0.974 | 0.954 | 0.953 | 0.931 | |
Methyl HT-SELEX, 2 experiments | median | 0.94 | 0.9 | 0.908 | 0.867 | 0.8 | 0.782 |
best | 0.967 | 0.94 | 0.931 | 0.903 | 0.841 | 0.788 | |
Non-Methyl HT-SELEX, 6 experiments | median | 0.955 | 0.926 | 0.933 | 0.899 | 0.878 | 0.846 |
best | 0.978 | 0.959 | 0.974 | 0.954 | 0.953 | 0.931 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | Paired-related HD {3.1.3} (TFClass) |
TF subfamily | PHOX {3.1.3.18} (TFClass) |
TFClass ID | TFClass: 3.1.3.18.2 |
HGNC | HGNC:9143 |
MGI | MGI:1100882 |
EntrezGene (human) | GeneID:8929 (SSTAR profile) |
EntrezGene (mouse) | GeneID:18935 (SSTAR profile) |
UniProt ID (human) | PHX2B_HUMAN |
UniProt ID (mouse) | PHX2B_MOUSE |
UniProt AC (human) | Q99453 (TFClass) |
UniProt AC (mouse) | O35690 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 3 human, 0 mouse |
HT-SELEX | 6 |
Methyl-HT-SELEX | 2 |
PCM | PHX2B.H12CORE.1.SM.B.pcm |
PWM | PHX2B.H12CORE.1.SM.B.pwm |
PFM | PHX2B.H12CORE.1.SM.B.pfm |
Alignment | PHX2B.H12CORE.1.SM.B.words.tsv |
Threshold to P-value map | PHX2B.H12CORE.1.SM.B.thr |
Motif in other formats | |
JASPAR format | PHX2B.H12CORE.1.SM.B_jaspar_format.txt |
MEME format | PHX2B.H12CORE.1.SM.B_meme_format.meme |
Transfac format | PHX2B.H12CORE.1.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 1967.0 | 2117.0 | 1780.0 | 1233.0 |
02 | 1629.0 | 2244.0 | 2638.0 | 586.0 |
03 | 134.0 | 2753.0 | 1293.0 | 2917.0 |
04 | 0.0 | 0.0 | 0.0 | 7097.0 |
05 | 7097.0 | 0.0 | 0.0 | 0.0 |
06 | 7097.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.0 | 0.0 | 7097.0 |
08 | 0.0 | 522.0 | 16.0 | 6559.0 |
09 | 3509.0 | 610.0 | 2468.0 | 510.0 |
10 | 1570.75 | 2584.75 | 1981.75 | 959.75 |
11 | 2088.0 | 1712.0 | 1697.0 | 1600.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.277 | 0.298 | 0.251 | 0.174 |
02 | 0.23 | 0.316 | 0.372 | 0.083 |
03 | 0.019 | 0.388 | 0.182 | 0.411 |
04 | 0.0 | 0.0 | 0.0 | 1.0 |
05 | 1.0 | 0.0 | 0.0 | 0.0 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.0 | 0.0 | 1.0 |
08 | 0.0 | 0.074 | 0.002 | 0.924 |
09 | 0.494 | 0.086 | 0.348 | 0.072 |
10 | 0.221 | 0.364 | 0.279 | 0.135 |
11 | 0.294 | 0.241 | 0.239 | 0.225 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.103 | 0.176 | 0.003 | -0.363 |
02 | -0.085 | 0.235 | 0.396 | -1.105 |
03 | -2.568 | 0.439 | -0.316 | 0.497 |
04 | -6.686 | -6.686 | -6.686 | 1.385 |
05 | 1.385 | -6.686 | -6.686 | -6.686 |
06 | 1.385 | -6.686 | -6.686 | -6.686 |
07 | -6.686 | -6.686 | -6.686 | 1.385 |
08 | -6.686 | -1.22 | -4.58 | 1.307 |
09 | 0.681 | -1.065 | 0.33 | -1.244 |
10 | -0.122 | 0.376 | 0.11 | -0.613 |
11 | 0.163 | -0.036 | -0.044 | -0.103 |
P-value | Threshold |
---|---|
0.001 | 4.563505 |
0.0005 | 6.003935 |
0.0001 | 7.910445 |