NFIA.H12INVIVO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIA.H12INVIVO.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	bYTGGChbCndGCCARv
GC content	62.26%
Information content (bits; total / per base)	15.173 / 0.893
Data sources	ChIP-Seq + HT-SELEX
Aligned words	999

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)	0.97	0.988	0.956	0.973	0.96	0.978	4.674	5.153	497.523	723.337
Mouse	6 (28)	0.812	0.876	0.711	0.812	0.76	0.839	2.248	2.933	65.94	163.886

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
#	14.138	2.885	0.324	0.151

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.H12INVIVO.1.PS.A.pcm
PWM	NFIA.H12INVIVO.1.PS.A.pwm
PFM	NFIA.H12INVIVO.1.PS.A.pfm
Alignment	NFIA.H12INVIVO.1.PS.A.words.tsv
Threshold to P-value map	NFIA.H12INVIVO.1.PS.A.thr
Motif in other formats
JASPAR format	NFIA.H12INVIVO.1.PS.A_jaspar_format.txt
MEME format	NFIA.H12INVIVO.1.PS.A_meme_format.meme
Transfac format	NFIA.H12INVIVO.1.PS.A_transfac_format.txt
Homer format	NFIA.H12INVIVO.1.PS.A_homer_format_0.001.txt NFIA.H12INVIVO.1.PS.A_homer_format_0.0005.txt NFIA.H12INVIVO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	98.0	448.0	226.0	227.0
02	28.0	459.0	41.0	471.0
03	31.0	7.0	106.0	855.0
04	0.0	1.0	995.0	3.0
05	15.0	3.0	976.0	5.0
06	178.0	773.0	35.0	13.0
07	343.0	219.0	98.0	339.0
08	122.0	392.0	264.0	221.0
09	0.0	530.0	0.0	469.0
10	198.0	307.0	257.0	237.0
11	237.0	95.0	253.0	414.0
12	8.0	25.0	755.0	211.0
13	4.0	978.0	3.0	14.0
14	0.0	992.0	4.0	3.0
15	866.0	106.0	4.0	23.0
16	426.0	41.0	490.0	42.0
17	197.0	233.0	457.0	112.0

PFM

	A	C	G	T
01	0.098	0.448	0.226	0.227
02	0.028	0.459	0.041	0.471
03	0.031	0.007	0.106	0.856
04	0.0	0.001	0.996	0.003
05	0.015	0.003	0.977	0.005
06	0.178	0.774	0.035	0.013
07	0.343	0.219	0.098	0.339
08	0.122	0.392	0.264	0.221
09	0.0	0.531	0.0	0.469
10	0.198	0.307	0.257	0.237
11	0.237	0.095	0.253	0.414
12	0.008	0.025	0.756	0.211
13	0.004	0.979	0.003	0.014
14	0.0	0.993	0.004	0.003
15	0.867	0.106	0.004	0.023
16	0.426	0.041	0.49	0.042
17	0.197	0.233	0.457	0.112

PWM

	A	C	G	T
01	-0.925	0.581	-0.099	-0.095
02	-2.135	0.605	-1.773	0.631
03	-2.039	-3.361	-0.848	1.226
04	-4.981	-4.524	1.377	-3.974
05	-2.71	-3.974	1.358	-3.621
06	-0.336	1.125	-1.924	-2.838
07	0.315	-0.13	-0.925	0.304
08	-0.709	0.448	0.055	-0.121
09	-4.981	0.749	-4.981	0.627
10	-0.23	0.205	0.028	-0.052
11	-0.052	-0.955	0.013	0.503
12	-3.252	-2.242	1.102	-0.167
13	-3.782	1.36	-3.974	-2.772
14	-4.981	1.374	-3.782	-3.974
15	1.239	-0.848	-3.782	-2.319
16	0.531	-1.773	0.671	-1.749
17	-0.235	-0.069	0.601	-0.794

Standard thresholds

P-value	Threshold
0.001	2.46911
0.0005	3.77266
0.0001	6.47016