Motif | BARX2.H12RSNP.0.SM.B |
Gene (human) | BARX2 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Barx2 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif | BARX2.H12RSNP.0.SM.B |
Gene (human) | BARX2 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Barx2 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | B |
Motif length | 13 |
Consensus | dWAATCATTAnbn |
GC content | 25.34% |
Information content (bits; total / per base) | 14.86 / 1.143 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 9984 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 2 experiments | median | 0.998 | 0.996 | 0.996 | 0.994 | 0.99 | 0.986 |
best | 0.998 | 0.997 | 0.997 | 0.995 | 0.992 | 0.988 | |
Methyl HT-SELEX, 1 experiments | median | 0.998 | 0.997 | 0.997 | 0.995 | 0.992 | 0.988 |
best | 0.998 | 0.997 | 0.997 | 0.995 | 0.992 | 0.988 | |
Non-Methyl HT-SELEX, 1 experiments | median | 0.997 | 0.995 | 0.996 | 0.993 | 0.989 | 0.984 |
best | 0.997 | 0.995 | 0.996 | 0.993 | 0.989 | 0.984 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 1 | 0.893 | 0.26 | 0.899 | 0.564 |
batch 2 | 0.892 | 0.746 | 0.891 | 0.674 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | NK-related {3.1.2} (TFClass) |
TF subfamily | BARX {3.1.2.2} (TFClass) |
TFClass ID | TFClass: 3.1.2.2.2 |
HGNC | HGNC:956 |
MGI | MGI:109617 |
EntrezGene (human) | GeneID:8538 (SSTAR profile) |
EntrezGene (mouse) | GeneID:12023 (SSTAR profile) |
UniProt ID (human) | BARX2_HUMAN |
UniProt ID (mouse) | BARX2_MOUSE |
UniProt AC (human) | Q9UMQ3 (TFClass) |
UniProt AC (mouse) | O08686 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 0 human, 0 mouse |
HT-SELEX | 1 |
Methyl-HT-SELEX | 1 |
PCM | BARX2.H12RSNP.0.SM.B.pcm |
PWM | BARX2.H12RSNP.0.SM.B.pwm |
PFM | BARX2.H12RSNP.0.SM.B.pfm |
Alignment | BARX2.H12RSNP.0.SM.B.words.tsv |
Threshold to P-value map | BARX2.H12RSNP.0.SM.B.thr |
Motif in other formats | |
JASPAR format | BARX2.H12RSNP.0.SM.B_jaspar_format.txt |
MEME format | BARX2.H12RSNP.0.SM.B_meme_format.meme |
Transfac format | BARX2.H12RSNP.0.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 4763.75 | 774.75 | 782.75 | 3662.75 |
02 | 5804.75 | 218.75 | 192.75 | 3767.75 |
03 | 9505.0 | 53.0 | 54.0 | 372.0 |
04 | 9675.0 | 131.0 | 70.0 | 108.0 |
05 | 14.0 | 3544.0 | 8.0 | 6418.0 |
06 | 531.0 | 8906.0 | 547.0 | 0.0 |
07 | 9609.0 | 4.0 | 371.0 | 0.0 |
08 | 1.0 | 3.0 | 0.0 | 9980.0 |
09 | 1.0 | 12.0 | 0.0 | 9971.0 |
10 | 9855.0 | 0.0 | 7.0 | 122.0 |
11 | 3206.0 | 2023.0 | 2898.0 | 1857.0 |
12 | 1245.0 | 4102.0 | 2343.0 | 2294.0 |
13 | 1795.25 | 2890.25 | 2950.25 | 2348.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.477 | 0.078 | 0.078 | 0.367 |
02 | 0.581 | 0.022 | 0.019 | 0.377 |
03 | 0.952 | 0.005 | 0.005 | 0.037 |
04 | 0.969 | 0.013 | 0.007 | 0.011 |
05 | 0.001 | 0.355 | 0.001 | 0.643 |
06 | 0.053 | 0.892 | 0.055 | 0.0 |
07 | 0.962 | 0.0 | 0.037 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 1.0 |
09 | 0.0 | 0.001 | 0.0 | 0.999 |
10 | 0.987 | 0.0 | 0.001 | 0.012 |
11 | 0.321 | 0.203 | 0.29 | 0.186 |
12 | 0.125 | 0.411 | 0.235 | 0.23 |
13 | 0.18 | 0.289 | 0.295 | 0.235 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.646 | -1.168 | -1.158 | 0.383 |
02 | 0.843 | -2.425 | -2.55 | 0.411 |
03 | 1.336 | -3.811 | -3.793 | -1.898 |
04 | 1.354 | -2.931 | -3.543 | -3.12 |
05 | -5.032 | 0.35 | -5.491 | 0.944 |
06 | -1.544 | 1.271 | -1.515 | -6.99 |
07 | 1.347 | -5.982 | -1.901 | -6.99 |
08 | -6.629 | -6.155 | -6.99 | 1.385 |
09 | -6.629 | -5.163 | -6.99 | 1.384 |
10 | 1.373 | -6.99 | -5.593 | -3.001 |
11 | 0.25 | -0.21 | 0.149 | -0.295 |
12 | -0.695 | 0.496 | -0.063 | -0.084 |
13 | -0.329 | 0.147 | 0.167 | -0.061 |
P-value | Threshold |
---|---|
0.001 | 1.49441 |
0.0005 | 3.14351 |
0.0001 | 6.336775 |