Motif | NR4A1.H12RSNP.0.PSM.A |
Gene (human) | NR4A1 (GeneCards) |
Gene synonyms (human) | GFRP1, HMR, NAK1 |
Gene (mouse) | Nr4a1 |
Gene synonyms (mouse) | Gfrp, Hmr, N10, Nur77 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | A |
Motif | NR4A1.H12RSNP.0.PSM.A |
Gene (human) | NR4A1 (GeneCards) |
Gene synonyms (human) | GFRP1, HMR, NAK1 |
Gene (mouse) | Nr4a1 |
Gene synonyms (mouse) | Gfrp, Hmr, N10, Nur77 |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | A |
Motif length | 8 |
Consensus | AAAKGTCA |
GC content | 36.45% |
Information content (bits; total / per base) | 12.245 / 1.531 |
Data sources | ChIP-Seq + HT-SELEX + Methyl-HT-SELEX |
Aligned words | 1000 |
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) | 0.882 | 0.914 | 0.829 | 0.869 | 0.869 | 0.895 | 2.881 | 3.016 | 220.27 | 257.854 |
Mouse | 1 (5) | 0.895 | 0.919 | 0.825 | 0.855 | 0.883 | 0.904 | 2.925 | 3.066 | 314.114 | 325.538 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.998 | 0.998 | 0.995 | 0.993 | 0.973 | 0.969 |
best | 1.0 | 1.0 | 0.999 | 0.999 | 0.998 | 0.997 | |
Methyl HT-SELEX, 2 experiments | median | 0.998 | 0.998 | 0.995 | 0.993 | 0.973 | 0.969 |
best | 0.998 | 0.998 | 0.996 | 0.994 | 0.984 | 0.979 | |
Non-Methyl HT-SELEX, 2 experiments | median | 0.998 | 0.996 | 0.991 | 0.987 | 0.957 | 0.952 |
best | 1.0 | 1.0 | 0.999 | 0.999 | 0.998 | 0.997 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 2 | 0.565 | 0.135 | 0.559 | 0.352 |
TF superclass | Zinc-coordinating DNA-binding domains {2} (TFClass) |
TF class | Nuclear receptors with C4 zinc fingers {2.1} (TFClass) |
TF family | NGFI (NR4A) {2.1.4} (TFClass) |
TF subfamily | {2.1.4.0} (TFClass) |
TFClass ID | TFClass: 2.1.4.0.1 |
HGNC | HGNC:7980 |
MGI | MGI:1352454 |
EntrezGene (human) | GeneID:3164 (SSTAR profile) |
EntrezGene (mouse) | GeneID:15370 (SSTAR profile) |
UniProt ID (human) | NR4A1_HUMAN |
UniProt ID (mouse) | NR4A1_MOUSE |
UniProt AC (human) | P22736 (TFClass) |
UniProt AC (mouse) | P12813 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 2 human, 1 mouse |
HT-SELEX | 2 |
Methyl-HT-SELEX | 2 |
PCM | NR4A1.H12RSNP.0.PSM.A.pcm |
PWM | NR4A1.H12RSNP.0.PSM.A.pwm |
PFM | NR4A1.H12RSNP.0.PSM.A.pfm |
Alignment | NR4A1.H12RSNP.0.PSM.A.words.tsv |
Threshold to P-value map | NR4A1.H12RSNP.0.PSM.A.thr |
Motif in other formats | |
JASPAR format | NR4A1.H12RSNP.0.PSM.A_jaspar_format.txt |
MEME format | NR4A1.H12RSNP.0.PSM.A_meme_format.meme |
Transfac format | NR4A1.H12RSNP.0.PSM.A_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 903.0 | 3.0 | 69.0 | 25.0 |
02 | 977.0 | 3.0 | 18.0 | 2.0 |
03 | 988.0 | 2.0 | 7.0 | 3.0 |
04 | 22.0 | 5.0 | 663.0 | 310.0 |
05 | 11.0 | 0.0 | 969.0 | 20.0 |
06 | 10.0 | 82.0 | 106.0 | 802.0 |
07 | 3.0 | 949.0 | 14.0 | 34.0 |
08 | 962.0 | 11.0 | 15.0 | 12.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.903 | 0.003 | 0.069 | 0.025 |
02 | 0.977 | 0.003 | 0.018 | 0.002 |
03 | 0.988 | 0.002 | 0.007 | 0.003 |
04 | 0.022 | 0.005 | 0.663 | 0.31 |
05 | 0.011 | 0.0 | 0.969 | 0.02 |
06 | 0.01 | 0.082 | 0.106 | 0.802 |
07 | 0.003 | 0.949 | 0.014 | 0.034 |
08 | 0.962 | 0.011 | 0.015 | 0.012 |
A | C | G | T | |
---|---|---|---|---|
01 | 1.279 | -3.975 | -1.27 | -2.243 |
02 | 1.358 | -3.975 | -2.546 | -4.213 |
03 | 1.369 | -4.213 | -3.362 | -3.975 |
04 | -2.362 | -3.622 | 0.971 | 0.214 |
05 | -2.985 | -4.982 | 1.35 | -2.45 |
06 | -3.066 | -1.101 | -0.849 | 1.161 |
07 | -3.975 | 1.329 | -2.773 | -1.952 |
08 | 1.342 | -2.985 | -2.711 | -2.909 |
P-value | Threshold |
---|---|
0.001 | 3.83066 |
0.0005 | 4.995195 |
0.0001 | 7.035265 |