Motif | NFIC.H12INVIVO.1.PSM.A |
Gene (human) | NFIC (GeneCards) |
Gene synonyms (human) | NFI |
Gene (mouse) | Nfic |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | A |
Motif | NFIC.H12INVIVO.1.PSM.A |
Gene (human) | NFIC (GeneCards) |
Gene synonyms (human) | NFI |
Gene (mouse) | Nfic |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | A |
Motif length | 9 |
Consensus | vWGCCARvh |
GC content | 57.51% |
Information content (bits; total / per base) | 9.456 / 1.051 |
Data sources | ChIP-Seq + HT-SELEX + Methyl-HT-SELEX |
Aligned words | 991 |
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 | 6 (41) | 0.818 | 0.869 | 0.674 | 0.749 | 0.72 | 0.764 | 1.79 | 2.006 | 98.409 | 451.032 |
Mouse | 2 (6) | 0.762 | 0.791 | 0.614 | 0.643 | 0.641 | 0.664 | 1.579 | 1.617 | 5.921 | 14.387 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 2 experiments | median | 0.98 | 0.964 | 0.971 | 0.952 | 0.96 | 0.937 |
best | 0.982 | 0.969 | 0.976 | 0.96 | 0.967 | 0.947 | |
Methyl HT-SELEX, 1 experiments | median | 0.982 | 0.969 | 0.976 | 0.96 | 0.967 | 0.947 |
best | 0.982 | 0.969 | 0.976 | 0.96 | 0.967 | 0.947 | |
Non-Methyl HT-SELEX, 1 experiments | median | 0.978 | 0.959 | 0.967 | 0.945 | 0.954 | 0.928 |
best | 0.978 | 0.959 | 0.967 | 0.945 | 0.954 | 0.928 |
rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
---|---|---|---|---|
# | 3.957 | 10.844 | 0.134 | 0.058 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 1 | 0.853 | 0.451 | 0.835 | 0.545 |
batch 2 | 0.824 | 0.556 | 0.862 | 0.669 |
TF superclass | beta-Hairpin exposed by an alpha/beta-scaffold {7} (TFClass) |
TF class | SMAD/NF-1 DNA-binding domain factors {7.1} (TFClass) |
TF family | NF-1 {7.1.2} (TFClass) |
TF subfamily | {7.1.2.0} (TFClass) |
TFClass ID | TFClass: 7.1.2.0.3 |
HGNC | HGNC:7786 |
MGI | MGI:109591 |
EntrezGene (human) | GeneID:4782 (SSTAR profile) |
EntrezGene (mouse) | GeneID:18029 (SSTAR profile) |
UniProt ID (human) | NFIC_HUMAN |
UniProt ID (mouse) | NFIC_MOUSE |
UniProt AC (human) | P08651 (TFClass) |
UniProt AC (mouse) | P70255 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 6 human, 2 mouse |
HT-SELEX | 1 |
Methyl-HT-SELEX | 1 |
PCM | NFIC.H12INVIVO.1.PSM.A.pcm |
PWM | NFIC.H12INVIVO.1.PSM.A.pwm |
PFM | NFIC.H12INVIVO.1.PSM.A.pfm |
Alignment | NFIC.H12INVIVO.1.PSM.A.words.tsv |
Threshold to P-value map | NFIC.H12INVIVO.1.PSM.A.thr |
Motif in other formats | |
JASPAR format | NFIC.H12INVIVO.1.PSM.A_jaspar_format.txt |
MEME format | NFIC.H12INVIVO.1.PSM.A_meme_format.meme |
Transfac format | NFIC.H12INVIVO.1.PSM.A_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 148.0 | 257.0 | 445.0 | 141.0 |
02 | 222.0 | 9.0 | 104.0 | 656.0 |
03 | 2.0 | 13.0 | 958.0 | 18.0 |
04 | 8.0 | 973.0 | 6.0 | 4.0 |
05 | 4.0 | 978.0 | 1.0 | 8.0 |
06 | 965.0 | 12.0 | 2.0 | 12.0 |
07 | 572.0 | 8.0 | 405.0 | 6.0 |
08 | 250.0 | 210.0 | 465.0 | 66.0 |
09 | 386.0 | 147.0 | 136.0 | 322.0 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.149 | 0.259 | 0.449 | 0.142 |
02 | 0.224 | 0.009 | 0.105 | 0.662 |
03 | 0.002 | 0.013 | 0.967 | 0.018 |
04 | 0.008 | 0.982 | 0.006 | 0.004 |
05 | 0.004 | 0.987 | 0.001 | 0.008 |
06 | 0.974 | 0.012 | 0.002 | 0.012 |
07 | 0.577 | 0.008 | 0.409 | 0.006 |
08 | 0.252 | 0.212 | 0.469 | 0.067 |
09 | 0.39 | 0.148 | 0.137 | 0.325 |
A | C | G | T | |
---|---|---|---|---|
01 | -0.511 | 0.036 | 0.583 | -0.558 |
02 | -0.109 | -3.147 | -0.859 | 0.969 |
03 | -4.204 | -2.83 | 1.347 | -2.537 |
04 | -3.245 | 1.363 | -3.475 | -3.775 |
05 | -3.775 | 1.368 | -4.517 | -3.245 |
06 | 1.355 | -2.9 | -4.204 | -2.9 |
07 | 0.833 | -3.245 | 0.489 | -3.475 |
08 | 0.009 | -0.164 | 0.626 | -1.304 |
09 | 0.441 | -0.517 | -0.594 | 0.261 |
P-value | Threshold |
---|---|
0.001 | 5.00763 |
0.0005 | 6.16921 |
0.0001 | 7.545925 |