NFIX.H12RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIX.H12RSNP.0.SM.B
Gene (human)	NFIX (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nfix
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	17
Consensus	vYTGGCdnCdYGCCARb
GC content	58.74%
Information content (bits; total / per base)	18.401 / 1.082
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2437

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	1.0	1.0	1.0	0.999	0.999	0.999
Overall, 6 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0
Methyl HT-SELEX, 1 experiments	median	1.0	1.0	1.0	0.999	0.999	0.999
Methyl HT-SELEX, 1 experiments	best	1.0	1.0	1.0	0.999	0.999	0.999
Non-Methyl HT-SELEX, 5 experiments	median	1.0	1.0	1.0	1.0	1.0	0.999
Non-Methyl HT-SELEX, 5 experiments	best	1.0	1.0	1.0	1.0	1.0	1.0

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.979	0.884	0.956	0.639
batch 2	0.717	0.545	0.733	0.515

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: 7.1.2.0.4
HGNC	HGNC:7788
MGI	MGI:97311
EntrezGene (human)	GeneID:4784 (SSTAR profile)
EntrezGene (mouse)	GeneID:18032 (SSTAR profile)
UniProt ID (human)	NFIX_HUMAN
UniProt ID (mouse)	NFIX_MOUSE
UniProt AC (human)	Q14938 (TFClass)
UniProt AC (mouse)	P70257 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	NFIX.H12RSNP.0.SM.B.pcm
PWM	NFIX.H12RSNP.0.SM.B.pwm
PFM	NFIX.H12RSNP.0.SM.B.pfm
Alignment	NFIX.H12RSNP.0.SM.B.words.tsv
Threshold to P-value map	NFIX.H12RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	NFIX.H12RSNP.0.SM.B_jaspar_format.txt
MEME format	NFIX.H12RSNP.0.SM.B_meme_format.meme
Transfac format	NFIX.H12RSNP.0.SM.B_transfac_format.txt
Homer format	NFIX.H12RSNP.0.SM.B_homer_format_0.001.txt NFIX.H12RSNP.0.SM.B_homer_format_0.0005.txt NFIX.H12RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	406.75	883.75	770.75	375.75
02	131.5	584.5	89.5	1631.5
03	11.0	8.0	57.0	2361.0
04	4.0	2.0	2429.0	2.0
05	10.0	3.0	2423.0	1.0
06	163.0	2244.0	19.0	11.0
07	1459.0	276.0	401.0	301.0
08	748.0	627.0	311.0	751.0
09	781.0	1656.0	0.0	0.0
10	425.0	345.0	1222.0	445.0
11	351.0	393.0	170.0	1523.0
12	12.0	5.0	2225.0	195.0
13	2.0	2430.0	2.0	3.0
14	0.0	2435.0	1.0	1.0
15	2372.0	47.0	10.0	8.0
16	1668.0	81.0	558.0	130.0
17	396.0	838.0	788.0	415.0

PFM

	A	C	G	T
01	0.167	0.363	0.316	0.154
02	0.054	0.24	0.037	0.669
03	0.005	0.003	0.023	0.969
04	0.002	0.001	0.997	0.001
05	0.004	0.001	0.994	0.0
06	0.067	0.921	0.008	0.005
07	0.599	0.113	0.165	0.124
08	0.307	0.257	0.128	0.308
09	0.32	0.68	0.0	0.0
10	0.174	0.142	0.501	0.183
11	0.144	0.161	0.07	0.625
12	0.005	0.002	0.913	0.08
13	0.001	0.997	0.001	0.001
14	0.0	0.999	0.0	0.0
15	0.973	0.019	0.004	0.003
16	0.684	0.033	0.229	0.053
17	0.162	0.344	0.323	0.17

PWM

	A	C	G	T
01	-0.402	0.371	0.234	-0.481
02	-1.522	-0.041	-1.9	0.983
03	-3.854	-4.118	-2.339	1.352
04	-4.632	-5.042	1.381	-5.042
05	-3.935	-4.816	1.378	-5.334
06	-1.31	1.301	-3.373	-3.854
07	0.871	-0.788	-0.417	-0.702
08	0.205	0.029	-0.669	0.209
09	0.248	0.998	-5.748	-5.748
10	-0.359	-0.566	0.694	-0.313
11	-0.549	-0.437	-1.268	0.914
12	-3.78	-4.477	1.293	-1.132
13	-5.042	1.381	-5.042	-4.816
14	-5.748	1.383	-5.334	-5.334
15	1.357	-2.525	-3.935	-4.118
16	1.005	-1.997	-0.088	-1.533
17	-0.429	0.318	0.257	-0.382

Standard thresholds

P-value	Threshold
0.001	-0.41439
0.0005	1.22201
0.0001	4.68686