Motif | SIX2.H12CORE.2.SM.B |
Gene (human) | SIX2 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Six2 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 2 |
Quality | B |
Motif | SIX2.H12CORE.2.SM.B |
Gene (human) | SIX2 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Six2 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 2 |
Quality | B |
Motif length | 9 |
Consensus | nbGATACvn |
GC content | 48.47% |
Information content (bits; total / per base) | 8.307 / 0.923 |
Data sources | HT-SELEX + Methyl-HT-SELEX |
Aligned words | 9559 |
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 | 5 (34) | 0.625 | 0.651 | 0.436 | 0.473 | 0.58 | 0.605 | 1.266 | 1.334 | 25.296 | 35.553 |
Mouse | 8 (52) | 0.619 | 0.649 | 0.436 | 0.487 | 0.571 | 0.607 | 1.249 | 1.39 | 31.747 | 47.071 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.891 | 0.842 | 0.836 | 0.785 | 0.769 | 0.724 |
best | 0.921 | 0.881 | 0.869 | 0.825 | 0.789 | 0.755 | |
Methyl HT-SELEX, 2 experiments | median | 0.903 | 0.858 | 0.854 | 0.805 | 0.782 | 0.742 |
best | 0.921 | 0.881 | 0.869 | 0.825 | 0.789 | 0.755 | |
Non-Methyl HT-SELEX, 2 experiments | median | 0.885 | 0.833 | 0.828 | 0.777 | 0.758 | 0.718 |
best | 0.896 | 0.85 | 0.833 | 0.786 | 0.763 | 0.719 |
rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
---|---|---|---|---|
# | 1.059 | -0.0 | 0.342 | 0.109 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.681 | 0.31 | 0.54 | 0.409 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | HD-SINE {3.1.6} (TFClass) |
TF subfamily | SIX1-like {3.1.6.1} (TFClass) |
TFClass ID | TFClass: 3.1.6.1.2 |
HGNC | HGNC:10888 |
MGI | MGI:102778 |
EntrezGene (human) | GeneID:10736 (SSTAR profile) |
EntrezGene (mouse) | GeneID:20472 (SSTAR profile) |
UniProt ID (human) | SIX2_HUMAN |
UniProt ID (mouse) | SIX2_MOUSE |
UniProt AC (human) | Q9NPC8 (TFClass) |
UniProt AC (mouse) | Q62232 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 5 human, 8 mouse |
HT-SELEX | 2 |
Methyl-HT-SELEX | 2 |
PCM | SIX2.H12CORE.2.SM.B.pcm |
PWM | SIX2.H12CORE.2.SM.B.pwm |
PFM | SIX2.H12CORE.2.SM.B.pfm |
Alignment | SIX2.H12CORE.2.SM.B.words.tsv |
Threshold to P-value map | SIX2.H12CORE.2.SM.B.thr |
Motif in other formats | |
JASPAR format | SIX2.H12CORE.2.SM.B_jaspar_format.txt |
MEME format | SIX2.H12CORE.2.SM.B_meme_format.meme |
Transfac format | SIX2.H12CORE.2.SM.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 2726.0 | 1920.0 | 3162.0 | 1751.0 |
02 | 414.5 | 4170.5 | 1120.5 | 3853.5 |
03 | 106.0 | 150.0 | 9291.0 | 12.0 |
04 | 7539.0 | 0.0 | 0.0 | 2020.0 |
05 | 97.0 | 496.0 | 0.0 | 8966.0 |
06 | 9263.0 | 296.0 | 0.0 | 0.0 |
07 | 44.0 | 7761.0 | 627.0 | 1127.0 |
08 | 1102.75 | 3630.75 | 3989.75 | 835.75 |
09 | 1627.25 | 2892.25 | 2195.25 | 2844.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.285 | 0.201 | 0.331 | 0.183 |
02 | 0.043 | 0.436 | 0.117 | 0.403 |
03 | 0.011 | 0.016 | 0.972 | 0.001 |
04 | 0.789 | 0.0 | 0.0 | 0.211 |
05 | 0.01 | 0.052 | 0.0 | 0.938 |
06 | 0.969 | 0.031 | 0.0 | 0.0 |
07 | 0.005 | 0.812 | 0.066 | 0.118 |
08 | 0.115 | 0.38 | 0.417 | 0.087 |
09 | 0.17 | 0.303 | 0.23 | 0.298 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.132 | -0.219 | 0.28 | -0.311 |
02 | -1.747 | 0.556 | -0.756 | 0.477 |
03 | -3.095 | -2.754 | 1.357 | -5.12 |
04 | 1.148 | -6.951 | -6.951 | -0.168 |
05 | -3.182 | -1.569 | -6.951 | 1.322 |
06 | 1.354 | -2.082 | -6.951 | -6.951 |
07 | -3.945 | 1.177 | -1.335 | -0.751 |
08 | -0.772 | 0.418 | 0.512 | -1.049 |
09 | -0.384 | 0.191 | -0.085 | 0.174 |
P-value | Threshold |
---|---|
0.001 | 5.310345 |
0.0005 | 6.00888 |
0.0001 | 7.314695 |