ETV5.H12RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ETV5.H12RSNP.0.PS.A
Gene (human)	ETV5 (GeneCards)
Gene synonyms (human)	ERM
Gene (mouse)	Etv5
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	ndCCGGAAGYdn
GC content	57.19%
Information content (bits; total / per base)	12.634 / 1.053
Data sources	ChIP-Seq + HT-SELEX
Aligned words	9848

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	2 (12)	0.691	0.934	0.537	0.866	0.598	0.881	1.366	3.009	7.812	369.921
Mouse	4 (20)	0.731	0.812	0.702	0.797	0.682	0.772	2.558	3.224	74.213	147.658

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.996	0.992	0.991	0.986	0.941	0.94
Overall, 4 experiments	best	0.998	0.996	0.995	0.992	0.989	0.984
Methyl HT-SELEX, 1 experiments	median	0.998	0.996	0.995	0.992	0.986	0.981
Methyl HT-SELEX, 1 experiments	best	0.998	0.996	0.995	0.992	0.986	0.981
Non-Methyl HT-SELEX, 3 experiments	median	0.995	0.991	0.988	0.983	0.896	0.899
Non-Methyl HT-SELEX, 3 experiments	best	0.996	0.993	0.994	0.99	0.989	0.984

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.964	0.925	0.97	0.756
batch 2	0.955	0.87	0.936	0.725

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: 3.5.2.2.6
HGNC	HGNC:3494
MGI	MGI:1096867
EntrezGene (human)	GeneID:2119 (SSTAR profile)
EntrezGene (mouse)	GeneID:104156 (SSTAR profile)
UniProt ID (human)	ETV5_HUMAN
UniProt ID (mouse)	ETV5_MOUSE
UniProt AC (human)	P41161 (TFClass)
UniProt AC (mouse)	Q9CXC9 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 4 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	ETV5.H12RSNP.0.PS.A.pcm
PWM	ETV5.H12RSNP.0.PS.A.pwm
PFM	ETV5.H12RSNP.0.PS.A.pfm
Alignment	ETV5.H12RSNP.0.PS.A.words.tsv
Threshold to P-value map	ETV5.H12RSNP.0.PS.A.thr
Motif in other formats
JASPAR format	ETV5.H12RSNP.0.PS.A_jaspar_format.txt
MEME format	ETV5.H12RSNP.0.PS.A_meme_format.meme
Transfac format	ETV5.H12RSNP.0.PS.A_transfac_format.txt
Homer format	ETV5.H12RSNP.0.PS.A_homer_format_0.001.txt ETV5.H12RSNP.0.PS.A_homer_format_0.0005.txt ETV5.H12RSNP.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2255.25	2045.25	2753.25	2794.25
02	4947.25	419.25	2047.25	2434.25
03	205.0	8531.0	1060.0	52.0
04	211.0	9622.0	10.0	5.0
05	1.0	0.0	9844.0	3.0
06	0.0	2.0	9846.0	0.0
07	9785.0	25.0	1.0	37.0
08	7426.0	100.0	28.0	2294.0
09	845.0	376.0	8516.0	111.0
10	443.0	2334.0	429.0	6642.0
11	3187.75	1310.75	3299.75	2049.75
12	2785.0	2075.0	2911.0	2077.0

PFM

	A	C	G	T
01	0.229	0.208	0.28	0.284
02	0.502	0.043	0.208	0.247
03	0.021	0.866	0.108	0.005
04	0.021	0.977	0.001	0.001
05	0.0	0.0	1.0	0.0
06	0.0	0.0	1.0	0.0
07	0.994	0.003	0.0	0.004
08	0.754	0.01	0.003	0.233
09	0.086	0.038	0.865	0.011
10	0.045	0.237	0.044	0.674
11	0.324	0.133	0.335	0.208
12	0.283	0.211	0.296	0.211

PWM

	A	C	G	T
01	-0.088	-0.185	0.112	0.126
02	0.697	-1.766	-0.184	-0.011
03	-2.476	1.242	-0.841	-3.815
04	-2.447	1.362	-5.3	-5.822
05	-6.616	-6.977	1.385	-6.142
06	-6.977	-6.351	1.385	-6.977
07	1.379	-4.503	-6.616	-4.138
08	1.103	-3.182	-4.399	-0.071
09	-1.068	-1.874	1.24	-3.08
10	-1.711	-0.053	-1.743	0.992
11	0.258	-0.63	0.293	-0.183
12	0.123	-0.171	0.167	-0.17

Standard thresholds

P-value	Threshold
0.001	3.27477
0.0005	4.688165
0.0001	7.324655