NFIA.H12RSNP.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIA.H12RSNP.1.PS.A
Gene (human)	NFIA (GeneCards)
Gene synonyms (human)	KIAA1439
Gene (mouse)	Nfia
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	17
Consensus	bYTGGChnCndGCCARv
GC content	60.64%
Information content (bits; total / per base)	15.419 / 0.907
Data sources	ChIP-Seq + 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	3 (21)	0.972	0.989	0.958	0.976	0.96	0.98	4.634	5.231	503.301	729.886
Mouse	6 (28)	0.801	0.867	0.705	0.805	0.753	0.832	2.209	2.856	67.474	164.027

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	1.0	1.0	0.986	0.987	0.819	0.854
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.887	0.909

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	100.0	4.148	0.341	0.162

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: 7.1.2.0.1
HGNC	HGNC:7784
MGI	MGI:108056
EntrezGene (human)	GeneID:4774 (SSTAR profile)
EntrezGene (mouse)	GeneID:18027 (SSTAR profile)
UniProt ID (human)	NFIA_HUMAN
UniProt ID (mouse)	NFIA_MOUSE
UniProt AC (human)	Q12857 (TFClass)
UniProt AC (mouse)	Q02780 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 6 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	NFIA.H12RSNP.1.PS.A.pcm
PWM	NFIA.H12RSNP.1.PS.A.pwm
PFM	NFIA.H12RSNP.1.PS.A.pfm
Alignment	NFIA.H12RSNP.1.PS.A.words.tsv
Threshold to P-value map	NFIA.H12RSNP.1.PS.A.thr
Motif in other formats
JASPAR format	NFIA.H12RSNP.1.PS.A_jaspar_format.txt
MEME format	NFIA.H12RSNP.1.PS.A_meme_format.meme
Transfac format	NFIA.H12RSNP.1.PS.A_transfac_format.txt
Homer format	NFIA.H12RSNP.1.PS.A_homer_format_0.001.txt NFIA.H12RSNP.1.PS.A_homer_format_0.0005.txt NFIA.H12RSNP.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	88.0	458.0	205.0	249.0
02	27.0	429.0	33.0	511.0
03	26.0	2.0	108.0	864.0
04	0.0	0.0	997.0	3.0
05	10.0	4.0	982.0	4.0
06	192.0	767.0	29.0	12.0
07	388.0	235.0	70.0	307.0
08	159.0	386.0	236.0	219.0
09	0.0	506.0	0.0	494.0
10	173.0	304.0	287.0	236.0
11	250.0	78.0	230.0	442.0
12	10.0	22.0	764.0	204.0
13	5.0	980.0	0.0	15.0
14	2.0	993.0	2.0	3.0
15	864.0	105.0	6.0	25.0
16	506.0	35.0	414.0	45.0
17	248.0	209.0	432.0	111.0

PFM

	A	C	G	T
01	0.088	0.458	0.205	0.249
02	0.027	0.429	0.033	0.511
03	0.026	0.002	0.108	0.864
04	0.0	0.0	0.997	0.003
05	0.01	0.004	0.982	0.004
06	0.192	0.767	0.029	0.012
07	0.388	0.235	0.07	0.307
08	0.159	0.386	0.236	0.219
09	0.0	0.506	0.0	0.494
10	0.173	0.304	0.287	0.236
11	0.25	0.078	0.23	0.442
12	0.01	0.022	0.764	0.204
13	0.005	0.98	0.0	0.015
14	0.002	0.993	0.002	0.003
15	0.864	0.105	0.006	0.025
16	0.506	0.035	0.414	0.045
17	0.248	0.209	0.432	0.111

PWM

	A	C	G	T
01	-1.032	0.602	-0.197	-0.004
02	-2.171	0.537	-1.981	0.711
03	-2.206	-4.213	-0.83	1.235
04	-4.982	-4.982	1.378	-3.975
05	-3.066	-3.783	1.363	-3.783
06	-0.262	1.116	-2.103	-2.909
07	0.437	-0.061	-1.255	0.204
08	-0.449	0.432	-0.057	-0.131
09	-4.982	0.702	-4.982	0.678
10	-0.365	0.194	0.137	-0.057
11	0.0	-1.15	-0.083	0.567
12	-3.066	-2.362	1.112	-0.202
13	-3.622	1.361	-4.982	-2.711
14	-4.213	1.374	-4.213	-3.975
15	1.235	-0.858	-3.484	-2.243
16	0.702	-1.925	0.502	-1.684
17	-0.008	-0.178	0.544	-0.803

Standard thresholds

P-value	Threshold
0.001	2.28021
0.0005	3.61316
0.0001	6.37296