ETV4.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ETV4.H12RSNP.0.P.B
Gene (human)	ETV4 (GeneCards)
Gene synonyms (human)	E1AF, PEA3
Gene (mouse)	Etv4
Gene synonyms (mouse)	Pea-3, Pea3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	9
Consensus	vCMGGAAGb
GC content	56.42%
Information content (bits; total / per base)	10.744 / 1.194
Data sources	ChIP-Seq
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	4 (24)	0.778	0.899	0.652	0.79	0.769	0.897	2.14	3.003	53.886	245.585

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.997	0.994	0.995	0.992	0.986	0.981
Overall, 8 experiments	best	0.998	0.996	0.999	0.997	0.997	0.995
Methyl HT-SELEX, 3 experiments	median	0.997	0.995	0.995	0.993	0.986	0.981
Methyl HT-SELEX, 3 experiments	best	0.998	0.995	0.998	0.996	0.994	0.991
Non-Methyl HT-SELEX, 5 experiments	median	0.997	0.993	0.992	0.987	0.912	0.908
Non-Methyl HT-SELEX, 5 experiments	best	0.998	0.996	0.999	0.997	0.997	0.995

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.804	0.435	0.676	0.451
batch 2	0.907	0.723	0.858	0.679

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Tryptophan cluster factors {3.5} (TFClass)
TF family	Ets-related {3.5.2} (TFClass)
TF subfamily	ELK-like {3.5.2.2} (TFClass)
TFClass ID	TFClass: 3.5.2.2.5
HGNC	HGNC:3493
MGI	MGI:99423
EntrezGene (human)	GeneID:2118 (SSTAR profile)
EntrezGene (mouse)	GeneID:18612 (SSTAR profile)
UniProt ID (human)	ETV4_HUMAN
UniProt ID (mouse)	ETV4_MOUSE
UniProt AC (human)	P43268 (TFClass)
UniProt AC (mouse)	P28322 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	4 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	3

PCM	ETV4.H12RSNP.0.P.B.pcm
PWM	ETV4.H12RSNP.0.P.B.pwm
PFM	ETV4.H12RSNP.0.P.B.pfm
Alignment	ETV4.H12RSNP.0.P.B.words.tsv
Threshold to P-value map	ETV4.H12RSNP.0.P.B.thr
Motif in other formats
JASPAR format	ETV4.H12RSNP.0.P.B_jaspar_format.txt
MEME format	ETV4.H12RSNP.0.P.B_meme_format.meme
Transfac format	ETV4.H12RSNP.0.P.B_transfac_format.txt
Homer format	ETV4.H12RSNP.0.P.B_homer_format_0.001.txt ETV4.H12RSNP.0.P.B_homer_format_0.0005.txt ETV4.H12RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	453.0	154.0	265.0	128.0
02	37.0	852.0	104.0	7.0
03	508.0	481.0	8.0	3.0
04	4.0	0.0	994.0	2.0
05	10.0	2.0	986.0	2.0
06	994.0	1.0	5.0	0.0
07	846.0	3.0	8.0	143.0
08	178.0	44.0	767.0	11.0
09	78.0	287.0	117.0	518.0

PFM

	A	C	G	T
01	0.453	0.154	0.265	0.128
02	0.037	0.852	0.104	0.007
03	0.508	0.481	0.008	0.003
04	0.004	0.0	0.994	0.002
05	0.01	0.002	0.986	0.002
06	0.994	0.001	0.005	0.0
07	0.846	0.003	0.008	0.143
08	0.178	0.044	0.767	0.011
09	0.078	0.287	0.117	0.518

PWM

	A	C	G	T
01	0.591	-0.48	0.058	-0.663
02	-1.872	1.221	-0.867	-3.362
03	0.706	0.651	-3.253	-3.975
04	-3.783	-4.982	1.375	-4.213
05	-3.066	-4.213	1.367	-4.213
06	1.375	-4.525	-3.622	-4.982
07	1.214	-3.975	-3.253	-0.553
08	-0.337	-1.706	1.116	-2.985
09	-1.15	0.137	-0.752	0.725

Standard thresholds

P-value	Threshold
0.001	4.50261
0.0005	5.57617
0.0001	7.65191