ETV4.H12INVIVO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ETV4.H12INVIVO.1.SM.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	1
Quality	B

Motif length	12
Consensus	nRCCGGAAGYdn
GC content	55.08%
Information content (bits; total / per base)	13.962 / 1.164
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9259

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)	0.788	0.91	0.668	0.811	0.776	0.912	2.217	3.358	48.824	297.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.999	0.998	0.997	0.995	0.989	0.985
Overall, 8 experiments	best	1.0	0.999	1.0	0.999	0.998	0.998
Methyl HT-SELEX, 3 experiments	median	0.999	0.998	0.997	0.995	0.989	0.985
Methyl HT-SELEX, 3 experiments	best	1.0	0.999	0.999	0.999	0.996	0.995
Non-Methyl HT-SELEX, 5 experiments	median	0.999	0.999	0.995	0.993	0.923	0.92
Non-Methyl HT-SELEX, 5 experiments	best	1.0	0.999	1.0	0.999	0.998	0.998

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.819	0.501	0.699	0.47
batch 2	0.938	0.822	0.876	0.708

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.H12INVIVO.1.SM.B.pcm
PWM	ETV4.H12INVIVO.1.SM.B.pwm
PFM	ETV4.H12INVIVO.1.SM.B.pfm
Alignment	ETV4.H12INVIVO.1.SM.B.words.tsv
Threshold to P-value map	ETV4.H12INVIVO.1.SM.B.thr
Motif in other formats
JASPAR format	ETV4.H12INVIVO.1.SM.B_jaspar_format.txt
MEME format	ETV4.H12INVIVO.1.SM.B_meme_format.meme
Transfac format	ETV4.H12INVIVO.1.SM.B_transfac_format.txt
Homer format	ETV4.H12INVIVO.1.SM.B_homer_format_0.001.txt ETV4.H12INVIVO.1.SM.B_homer_format_0.0005.txt ETV4.H12INVIVO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2529.75	1998.75	2835.75	1894.75
02	6274.5	206.5	1687.5	1090.5
03	303.0	8422.0	509.0	25.0
04	1783.0	7474.0	0.0	2.0
05	0.0	0.0	9259.0	0.0
06	0.0	0.0	9259.0	0.0
07	9259.0	0.0	0.0	0.0
08	8697.0	1.0	0.0	561.0
09	442.0	63.0	8753.0	1.0
10	96.0	1443.0	789.0	6931.0
11	3927.5	804.5	3237.5	1289.5
12	3074.5	2103.5	2348.5	1732.5

PFM

	A	C	G	T
01	0.273	0.216	0.306	0.205
02	0.678	0.022	0.182	0.118
03	0.033	0.91	0.055	0.003
04	0.193	0.807	0.0	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	1.0	0.0
07	1.0	0.0	0.0	0.0
08	0.939	0.0	0.0	0.061
09	0.048	0.007	0.945	0.0
10	0.01	0.156	0.085	0.749
11	0.424	0.087	0.35	0.139
12	0.332	0.227	0.254	0.187

PWM

	A	C	G	T
01	0.089	-0.147	0.203	-0.2
02	0.997	-2.407	-0.316	-0.752
03	-2.027	1.291	-1.511	-4.442
04	-0.261	1.171	-6.922	-6.293
05	-6.922	-6.922	1.386	-6.922
06	-6.922	-6.922	1.386	-6.922
07	1.386	-6.922	-6.922	-6.922
08	1.323	-6.559	-6.922	-1.414
09	-1.652	-3.569	1.329	-6.559
10	-3.16	-0.472	-1.074	1.096
11	0.528	-1.055	0.335	-0.584
12	0.284	-0.096	0.014	-0.289

Standard thresholds

P-value	Threshold
0.001	1.912695
0.0005	3.6653
0.0001	6.962575