NFIX.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIX.H12INVIVO.0.SM.D
Gene (human)	NFIX (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nfix
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	17
Consensus	nYTGGCdnCdhGCCARn
GC content	58.91%
Information content (bits; total / per base)	16.734 / 0.984
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9985

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	1.0	1.0	1.0	1.0	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	0.981	0.883	0.956	0.634
batch 2	0.721	0.556	0.731	0.532

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.H12INVIVO.0.SM.D.pcm
PWM	NFIX.H12INVIVO.0.SM.D.pwm
PFM	NFIX.H12INVIVO.0.SM.D.pfm
Alignment	NFIX.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	NFIX.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	NFIX.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	NFIX.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	NFIX.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	NFIX.H12INVIVO.0.SM.D_homer_format_0.001.txt NFIX.H12INVIVO.0.SM.D_homer_format_0.0005.txt NFIX.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1726.75	3500.75	2987.75	1769.75
02	688.25	2712.25	456.25	6128.25
03	108.0	103.0	362.0	9412.0
04	62.0	64.0	9827.0	32.0
05	80.0	83.0	9766.0	56.0
06	917.0	8835.0	104.0	129.0
07	5954.0	979.0	1698.0	1354.0
08	2841.0	2847.0	1814.0	2483.0
09	0.0	6425.0	0.0	3560.0
10	2146.0	1280.0	4600.0	1959.0
11	1516.0	1824.0	999.0	5646.0
12	96.0	93.0	8915.0	881.0
13	36.0	9809.0	64.0	76.0
14	37.0	9861.0	41.0	46.0
15	9426.0	334.0	117.0	108.0
16	6323.75	520.75	2489.75	650.75
17	1833.5	3242.5	3237.5	1671.5

PFM

	A	C	G	T
01	0.173	0.351	0.299	0.177
02	0.069	0.272	0.046	0.614
03	0.011	0.01	0.036	0.943
04	0.006	0.006	0.984	0.003
05	0.008	0.008	0.978	0.006
06	0.092	0.885	0.01	0.013
07	0.596	0.098	0.17	0.136
08	0.285	0.285	0.182	0.249
09	0.0	0.643	0.0	0.357
10	0.215	0.128	0.461	0.196
11	0.152	0.183	0.1	0.565
12	0.01	0.009	0.893	0.088
13	0.004	0.982	0.006	0.008
14	0.004	0.988	0.004	0.005
15	0.944	0.033	0.012	0.011
16	0.633	0.052	0.249	0.065
17	0.184	0.325	0.324	0.167

PWM

	A	C	G	T
01	-0.368	0.338	0.18	-0.344
02	-1.286	0.083	-1.695	0.898
03	-3.12	-3.167	-1.925	1.327
04	-3.66	-3.629	1.37	-4.288
05	-3.413	-3.377	1.363	-3.758
06	-1.0	1.263	-3.157	-2.946
07	0.869	-0.935	-0.385	-0.611
08	0.129	0.131	-0.319	-0.005
09	-6.99	0.945	-6.99	0.355
10	-0.151	-0.667	0.611	-0.242
11	-0.498	-0.313	-0.914	0.816
12	-3.235	-3.266	1.272	-1.04
13	-4.178	1.368	-3.629	-3.463
14	-4.152	1.373	-4.055	-3.946
15	1.328	-2.005	-3.042	-3.12
16	0.929	-1.564	-0.003	-1.342
17	-0.308	0.261	0.26	-0.401

Standard thresholds

P-value	Threshold
0.001	1.48351
0.0005	2.86061
0.0001	5.77351