Motif | NANOG.H12CORE.2.M.C |
Gene (human) | NANOG (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Nanog |
Gene synonyms (mouse) | Ecat4, Enk |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 2 |
Quality | C |
Motif | NANOG.H12CORE.2.M.C |
Gene (human) | NANOG (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Nanog |
Gene synonyms (mouse) | Ecat4, Enk |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 2 |
Quality | C |
Motif length | 12 |
Consensus | nRTTAAKGdddd |
GC content | 31.4% |
Information content (bits; total / per base) | 10.811 / 0.901 |
Data sources | Methyl-HT-SELEX |
Aligned words | 6689 |
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 | 15 (95) | 0.543 | 0.598 | 0.372 | 0.413 | 0.576 | 0.639 | 1.315 | 1.519 | 8.108 | 26.658 |
Mouse | 25 (160) | 0.56 | 0.673 | 0.371 | 0.471 | 0.521 | 0.657 | 1.115 | 1.553 | 4.68 | 16.229 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Methyl HT-SELEX, 1 experiments | median | 0.789 | 0.725 | 0.739 | 0.682 | 0.688 | 0.644 |
best | 0.789 | 0.725 | 0.739 | 0.682 | 0.688 | 0.644 |
rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
---|---|---|---|---|
# | 1.384 | 0.332 | 0.101 | 0.053 |
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 | NANOG {3.1.2.12} (TFClass) |
TFClass ID | TFClass: 3.1.2.12.1 |
HGNC | HGNC:20857 |
MGI | MGI:1919200 |
EntrezGene (human) | GeneID:79923 (SSTAR profile) |
EntrezGene (mouse) | GeneID:71950 (SSTAR profile) |
UniProt ID (human) | NANOG_HUMAN |
UniProt ID (mouse) | NANOG_MOUSE |
UniProt AC (human) | Q9H9S0 (TFClass) |
UniProt AC (mouse) | Q80Z64 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 15 human, 25 mouse |
HT-SELEX | 0 |
Methyl-HT-SELEX | 1 |
PCM | NANOG.H12CORE.2.M.C.pcm |
PWM | NANOG.H12CORE.2.M.C.pwm |
PFM | NANOG.H12CORE.2.M.C.pfm |
Alignment | NANOG.H12CORE.2.M.C.words.tsv |
Threshold to P-value map | NANOG.H12CORE.2.M.C.thr |
Motif in other formats | |
JASPAR format | NANOG.H12CORE.2.M.C_jaspar_format.txt |
MEME format | NANOG.H12CORE.2.M.C_meme_format.meme |
Transfac format | NANOG.H12CORE.2.M.C_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 1716.75 | 1019.75 | 1489.75 | 2462.75 |
02 | 1643.5 | 301.5 | 4054.5 | 689.5 |
03 | 370.0 | 102.0 | 644.0 | 5573.0 |
04 | 0.0 | 2.0 | 0.0 | 6687.0 |
05 | 6331.0 | 0.0 | 358.0 | 0.0 |
06 | 6688.0 | 0.0 | 1.0 | 0.0 |
07 | 1.0 | 862.0 | 1037.0 | 4789.0 |
08 | 2.0 | 8.0 | 5600.0 | 1079.0 |
09 | 3070.0 | 194.0 | 2254.0 | 1171.0 |
10 | 789.5 | 450.5 | 1715.5 | 3733.5 |
11 | 1139.5 | 418.5 | 2159.5 | 2971.5 |
12 | 1764.25 | 521.25 | 2015.25 | 2388.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.257 | 0.152 | 0.223 | 0.368 |
02 | 0.246 | 0.045 | 0.606 | 0.103 |
03 | 0.055 | 0.015 | 0.096 | 0.833 |
04 | 0.0 | 0.0 | 0.0 | 1.0 |
05 | 0.946 | 0.0 | 0.054 | 0.0 |
06 | 1.0 | 0.0 | 0.0 | 0.0 |
07 | 0.0 | 0.129 | 0.155 | 0.716 |
08 | 0.0 | 0.001 | 0.837 | 0.161 |
09 | 0.459 | 0.029 | 0.337 | 0.175 |
10 | 0.118 | 0.067 | 0.256 | 0.558 |
11 | 0.17 | 0.063 | 0.323 | 0.444 |
12 | 0.264 | 0.078 | 0.301 | 0.357 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.026 | -0.494 | -0.115 | 0.387 |
02 | -0.017 | -1.707 | 0.885 | -0.884 |
03 | -1.504 | -2.777 | -0.952 | 1.203 |
04 | -6.634 | -5.988 | -6.634 | 1.385 |
05 | 1.33 | -6.634 | -1.537 | -6.634 |
06 | 1.385 | -6.634 | -6.259 | -6.634 |
07 | -6.259 | -0.661 | -0.477 | 1.051 |
08 | -5.988 | -5.101 | 1.208 | -0.437 |
09 | 0.607 | -2.144 | 0.298 | -0.356 |
10 | -0.749 | -1.308 | 0.026 | 0.802 |
11 | -0.383 | -1.381 | 0.255 | 0.574 |
12 | 0.053 | -1.163 | 0.186 | 0.356 |
P-value | Threshold |
---|---|
0.001 | 4.64752 |
0.0005 | 5.66202 |
0.0001 | 7.493025 |