TEAD2.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD2.H12INVIVO.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	12
Consensus	RMATTCCWRvvv
GC content	48.32%
Information content (bits; total / per base)	11.813 / 0.984
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	987

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)	0.784	0.808	0.663	0.702	0.777	0.793	2.437	2.526	129.644	148.252
Mouse	1 (7)	0.9	0.913	0.845	0.872	0.885	0.9	3.706	3.852	133.046	313.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.988	0.976	0.985	0.972	0.973	0.959
Overall, 2 experiments	best	0.989	0.978	0.986	0.975	0.975	0.96
Methyl HT-SELEX, 1 experiments	median	0.986	0.975	0.983	0.97	0.975	0.96
Methyl HT-SELEX, 1 experiments	best	0.986	0.975	0.983	0.97	0.975	0.96
Non-Methyl HT-SELEX, 1 experiments	median	0.989	0.978	0.986	0.975	0.972	0.958
Non-Methyl HT-SELEX, 1 experiments	best	0.989	0.978	0.986	0.975	0.972	0.958

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.81	0.562	0.807	0.615

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.H12INVIVO.0.PSM.A.pcm
PWM	TEAD2.H12INVIVO.0.PSM.A.pwm
PFM	TEAD2.H12INVIVO.0.PSM.A.pfm
Alignment	TEAD2.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	TEAD2.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	TEAD2.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	TEAD2.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	TEAD2.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	TEAD2.H12INVIVO.0.PSM.A_homer_format_0.001.txt TEAD2.H12INVIVO.0.PSM.A_homer_format_0.0005.txt TEAD2.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	590.0	10.0	367.0	20.0
02	196.0	727.0	42.0	22.0
03	963.0	9.0	8.0	7.0
04	6.0	11.0	5.0	965.0
05	85.0	6.0	37.0	859.0
06	3.0	961.0	12.0	11.0
07	4.0	913.0	8.0	62.0
08	536.0	52.0	17.0	382.0
09	163.0	62.0	676.0	86.0
10	148.0	232.0	528.0	79.0
11	265.0	335.0	277.0	110.0
12	397.0	250.0	178.0	162.0

PFM

	A	C	G	T
01	0.598	0.01	0.372	0.02
02	0.199	0.737	0.043	0.022
03	0.976	0.009	0.008	0.007
04	0.006	0.011	0.005	0.978
05	0.086	0.006	0.037	0.87
06	0.003	0.974	0.012	0.011
07	0.004	0.925	0.008	0.063
08	0.543	0.053	0.017	0.387
09	0.165	0.063	0.685	0.087
10	0.15	0.235	0.535	0.08
11	0.268	0.339	0.281	0.111
12	0.402	0.253	0.18	0.164

PWM

	A	C	G	T
01	0.868	-3.054	0.395	-2.437
02	-0.228	1.076	-1.737	-2.349
03	1.357	-3.143	-3.241	-3.349
04	-3.471	-2.972	-3.61	1.359
05	-1.053	-3.471	-1.859	1.242
06	-3.963	1.354	-2.896	-2.972
07	-3.771	1.303	-3.241	-1.361
08	0.772	-1.531	-2.586	0.435
09	-0.411	-1.361	1.003	-1.041
10	-0.507	-0.061	0.757	-1.124
11	0.071	0.304	0.115	-0.799
12	0.473	0.013	-0.324	-0.417

Standard thresholds

P-value	Threshold
0.001	4.16341
0.0005	5.180815
0.0001	7.271355