TEAD2.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD2.H12RSNP.0.PSM.A
Gene (human)	TEAD2 (GeneCards)
Gene synonyms (human)	TEF4
Gene (mouse)	Tead2
Gene synonyms (mouse)	Etdf, Etf, Tef4
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	nbRCATTCCWndn
GC content	47.61%
Information content (bits; total / per base)	13.535 / 1.041
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9657

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	1 (6)	0.792	0.81	0.656	0.698	0.776	0.786	2.367	2.406	115.59	135.222
Mouse	1 (7)	0.871	0.893	0.773	0.797	0.85	0.864	2.797	2.829	121.509	243.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.998	0.997	0.996	0.994	0.988	0.983
Overall, 2 experiments	best	0.998	0.998	0.997	0.995	0.99	0.987
Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.995	0.993	0.985	0.98
Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.995	0.993	0.985	0.98
Non-Methyl HT-SELEX, 1 experiments	median	0.998	0.998	0.997	0.995	0.99	0.987
Non-Methyl HT-SELEX, 1 experiments	best	0.998	0.998	0.997	0.995	0.99	0.987

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.829	0.615	0.818	0.634

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	TEA domain factors {3.6} (TFClass)
TF family	TEF1-related {3.6.1} (TFClass)
TF subfamily	{3.6.1.0} (TFClass)
TFClass ID	TFClass: 3.6.1.0.3
HGNC	HGNC:11715
MGI	MGI:104904
EntrezGene (human)	GeneID:8463 (SSTAR profile)
EntrezGene (mouse)	GeneID:21677 (SSTAR profile)
UniProt ID (human)	TEAD2_HUMAN
UniProt ID (mouse)	TEAD2_MOUSE
UniProt AC (human)	Q15562 (TFClass)
UniProt AC (mouse)	P48301 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 1 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	TEAD2.H12RSNP.0.PSM.A.pcm
PWM	TEAD2.H12RSNP.0.PSM.A.pwm
PFM	TEAD2.H12RSNP.0.PSM.A.pfm
Alignment	TEAD2.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	TEAD2.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	TEAD2.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	TEAD2.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	TEAD2.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	TEAD2.H12RSNP.0.PSM.A_homer_format_0.001.txt TEAD2.H12RSNP.0.PSM.A_homer_format_0.0005.txt TEAD2.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2203.0	3566.0	1814.0	2074.0
02	1094.0	5428.0	1277.0	1858.0
03	4367.0	60.0	5186.0	44.0
04	543.0	9106.0	6.0	2.0
05	9655.0	0.0	1.0	1.0
06	0.0	0.0	0.0	9657.0
07	185.0	0.0	0.0	9472.0
08	0.0	9657.0	0.0	0.0
09	1.0	9529.0	2.0	125.0
10	5884.0	154.0	1255.0	2364.0
11	2787.0	2238.0	1421.0	3211.0
12	2878.0	1497.0	1610.0	3672.0
13	2056.25	3171.25	2796.25	1633.25

PFM

	A	C	G	T
01	0.228	0.369	0.188	0.215
02	0.113	0.562	0.132	0.192
03	0.452	0.006	0.537	0.005
04	0.056	0.943	0.001	0.0
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	0.019	0.0	0.0	0.981
08	0.0	1.0	0.0	0.0
09	0.0	0.987	0.0	0.013
10	0.609	0.016	0.13	0.245
11	0.289	0.232	0.147	0.333
12	0.298	0.155	0.167	0.38
13	0.213	0.328	0.29	0.169

PWM

	A	C	G	T
01	-0.091	0.39	-0.286	-0.152
02	-0.79	0.81	-0.636	-0.262
03	0.592	-3.658	0.764	-3.955
04	-1.489	1.327	-5.675	-6.333
05	1.385	-6.96	-6.598	-6.598
06	-6.96	-6.96	-6.96	1.386
07	-2.557	-6.96	-6.96	1.366
08	-6.96	1.386	-6.96	-6.96
09	-6.598	1.372	-6.333	-2.944
10	0.89	-2.738	-0.653	-0.021
11	0.143	-0.076	-0.529	0.285
12	0.176	-0.477	-0.405	0.419
13	-0.16	0.273	0.147	-0.39

Standard thresholds

P-value	Threshold
0.001	1.48046
0.0005	3.15917
0.0001	7.077475