NFIA.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NFIA.H12INVITRO.0.P.B
Gene (human)	NFIA (GeneCards)
Gene synonyms (human)	KIAA1439
Gene (mouse)	Nfia
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	7
Consensus	bYTGGCW
GC content	61.46%
Information content (bits; total / per base)	7.933 / 1.133
Data sources	ChIP-Seq
Aligned words	1027

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)	0.763	0.79	0.589	0.63	0.606	0.619	1.142	1.182	114.432	189.824
Mouse	6 (28)	0.785	0.911	0.685	0.863	0.615	0.736	1.208	1.545	49.539	72.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.99	0.987	0.968	0.959	0.828	0.844
Non-Methyl HT-SELEX, 2 experiments	best	0.996	0.996	0.99	0.985	0.89	0.899

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.137	1.023	0.222	0.075

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.H12INVITRO.0.P.B.pcm
PWM	NFIA.H12INVITRO.0.P.B.pwm
PFM	NFIA.H12INVITRO.0.P.B.pfm
Alignment	NFIA.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	NFIA.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	NFIA.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	NFIA.H12INVITRO.0.P.B_meme_format.meme
Transfac format	NFIA.H12INVITRO.0.P.B_transfac_format.txt
Homer format	NFIA.H12INVITRO.0.P.B_homer_format_0.001.txt NFIA.H12INVITRO.0.P.B_homer_format_0.0005.txt NFIA.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	86.0	451.0	268.0	222.0
02	47.0	521.0	32.0	427.0
03	6.0	3.0	45.0	973.0
04	2.0	3.0	1012.0	10.0
05	6.0	5.0	1005.0	11.0
06	85.0	892.0	34.0	16.0
07	571.0	116.0	31.0	309.0

PFM

	A	C	G	T
01	0.084	0.439	0.261	0.216
02	0.046	0.507	0.031	0.416
03	0.006	0.003	0.044	0.947
04	0.002	0.003	0.985	0.01
05	0.006	0.005	0.979	0.011
06	0.083	0.869	0.033	0.016
07	0.556	0.113	0.03	0.301

PWM

	A	C	G	T
01	-1.081	0.56	0.043	-0.144
02	-1.668	0.704	-2.036	0.506
03	-3.509	-4.0	-1.71	1.327
04	-4.237	-4.0	1.367	-3.092
05	-3.509	-3.648	1.36	-3.011
06	-1.092	1.241	-1.979	-2.679
07	0.796	-0.786	-2.066	0.184

Standard thresholds

P-value	Threshold
0.001	5.19926
0.0005	6.15266
0.0001	7.02259