Motif | NKX25.H12CORE.0.PSM.A |
Gene (human) | NKX2-5 (GeneCards) |
Gene synonyms (human) | CSX, NKX2.5, NKX2E |
Gene (mouse) | Nkx2-5 |
Gene synonyms (mouse) | Csx, Nkx-2.5, Nkx2e |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | A |
Motif | NKX25.H12CORE.0.PSM.A |
Gene (human) | NKX2-5 (GeneCards) |
Gene synonyms (human) | CSX, NKX2.5, NKX2E |
Gene (mouse) | Nkx2-5 |
Gene synonyms (mouse) | Csx, Nkx-2.5, Nkx2e |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | A |
Motif length | 10 |
Consensus | bWYAAGTGSn |
GC content | 46.49% |
Information content (bits; total / per base) | 10.995 / 1.1 |
Data sources | ChIP-Seq + HT-SELEX + Methyl-HT-SELEX |
Aligned words | 9953 |
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 | 2 (14) | 0.754 | 0.763 | 0.6 | 0.618 | 0.706 | 0.716 | 1.802 | 1.86 | 90.651 | 104.215 |
Mouse | 7 (29) | 0.741 | 0.807 | 0.596 | 0.651 | 0.697 | 0.749 | 1.807 | 1.944 | 54.081 | 122.886 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 2 experiments | median | 0.983 | 0.971 | 0.961 | 0.946 | 0.883 | 0.87 |
best | 0.992 | 0.985 | 0.985 | 0.977 | 0.917 | 0.91 | |
Methyl HT-SELEX, 1 experiments | median | 0.992 | 0.985 | 0.985 | 0.977 | 0.917 | 0.91 |
best | 0.992 | 0.985 | 0.985 | 0.977 | 0.917 | 0.91 | |
Non-Methyl HT-SELEX, 1 experiments | median | 0.974 | 0.957 | 0.937 | 0.914 | 0.848 | 0.83 |
best | 0.974 | 0.957 | 0.937 | 0.914 | 0.848 | 0.83 |
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 | NK4 {3.1.2.17} (TFClass) |
TFClass ID | TFClass: 3.1.2.17.2 |
HGNC | HGNC:2488 |
MGI | MGI:97350 |
EntrezGene (human) | GeneID:1482 (SSTAR profile) |
EntrezGene (mouse) | GeneID:18091 (SSTAR profile) |
UniProt ID (human) | NKX25_HUMAN |
UniProt ID (mouse) | NKX25_MOUSE |
UniProt AC (human) | P52952 (TFClass) |
UniProt AC (mouse) | P42582 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 2 human, 7 mouse |
HT-SELEX | 1 |
Methyl-HT-SELEX | 1 |
PCM | NKX25.H12CORE.0.PSM.A.pcm |
PWM | NKX25.H12CORE.0.PSM.A.pwm |
PFM | NKX25.H12CORE.0.PSM.A.pfm |
Alignment | NKX25.H12CORE.0.PSM.A.words.tsv |
Threshold to P-value map | NKX25.H12CORE.0.PSM.A.thr |
Motif in other formats | |
JASPAR format | NKX25.H12CORE.0.PSM.A_jaspar_format.txt |
MEME format | NKX25.H12CORE.0.PSM.A_meme_format.meme |
Transfac format | NKX25.H12CORE.0.PSM.A_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 1331.75 | 3350.75 | 3286.75 | 1983.75 |
02 | 1575.5 | 1039.5 | 1159.5 | 6178.5 |
03 | 280.0 | 3296.0 | 859.0 | 5518.0 |
04 | 9673.0 | 0.0 | 278.0 | 2.0 |
05 | 9953.0 | 0.0 | 0.0 | 0.0 |
06 | 0.0 | 0.0 | 9953.0 | 0.0 |
07 | 81.0 | 1.0 | 17.0 | 9854.0 |
08 | 595.0 | 4.0 | 9351.0 | 3.0 |
09 | 302.0 | 3009.0 | 5521.0 | 1121.0 |
10 | 1932.5 | 2668.5 | 2477.5 | 2874.5 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.134 | 0.337 | 0.33 | 0.199 |
02 | 0.158 | 0.104 | 0.116 | 0.621 |
03 | 0.028 | 0.331 | 0.086 | 0.554 |
04 | 0.972 | 0.0 | 0.028 | 0.0 |
05 | 1.0 | 0.0 | 0.0 | 0.0 |
06 | 0.0 | 0.0 | 1.0 | 0.0 |
07 | 0.008 | 0.0 | 0.002 | 0.99 |
08 | 0.06 | 0.0 | 0.94 | 0.0 |
09 | 0.03 | 0.302 | 0.555 | 0.113 |
10 | 0.194 | 0.268 | 0.249 | 0.289 |
A | C | G | T | |
---|---|---|---|---|
01 | -0.624 | 0.297 | 0.278 | -0.226 |
02 | -0.456 | -0.872 | -0.763 | 0.909 |
03 | -2.177 | 0.281 | -1.062 | 0.796 |
04 | 1.357 | -6.987 | -2.184 | -6.361 |
05 | 1.386 | -6.987 | -6.987 | -6.987 |
06 | -6.987 | -6.987 | 1.386 | -6.987 |
07 | -3.398 | -6.626 | -4.86 | 1.376 |
08 | -1.428 | -5.979 | 1.323 | -6.152 |
09 | -2.102 | 0.19 | 0.796 | -0.796 |
10 | -0.252 | 0.07 | -0.004 | 0.144 |
P-value | Threshold |
---|---|
0.001 | 4.345585 |
0.0005 | 5.67194 |
0.0001 | 7.72607 |