TEAD1.H12INVIVO.1.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD1.H12INVIVO.1.P.C
Gene (human)	TEAD1 (GeneCards)
Gene synonyms (human)	TCF13, TEF1
Gene (mouse)	Tead1
Gene synonyms (mouse)	Tcf13, Tef-1, Tef1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	13
Consensus	RMATTCCWdvvWW
GC content	39.19%
Information content (bits; total / per base)	12.406 / 0.954
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	12 (82)	0.862	0.912	0.762	0.849	0.863	0.91	3.178	3.857	281.027	570.469
Mouse	5 (31)	0.855	0.909	0.751	0.838	0.827	0.889	2.801	3.492	342.161	645.301

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.853	0.826	0.792	0.771	0.742	0.726
Overall, 4 experiments	best	0.963	0.938	0.945	0.915	0.909	0.875
Methyl HT-SELEX, 1 experiments	median	0.963	0.938	0.945	0.915	0.909	0.875
Methyl HT-SELEX, 1 experiments	best	0.963	0.938	0.945	0.915	0.909	0.875
Non-Methyl HT-SELEX, 3 experiments	median	0.746	0.719	0.643	0.633	0.58	0.583
Non-Methyl HT-SELEX, 3 experiments	best	0.96	0.933	0.941	0.909	0.904	0.868

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	16.0	3.484	0.255	0.127

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.8	0.55	0.821	0.587

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: 3.6.1.0.1
HGNC	HGNC:11714
MGI	MGI:101876
EntrezGene (human)	GeneID:7003 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	TEAD1_HUMAN
UniProt ID (mouse)	TEAD1_MOUSE
UniProt AC (human)	P28347 (TFClass)
UniProt AC (mouse)	P30051 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	12 human, 5 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	TEAD1.H12INVIVO.1.P.C.pcm
PWM	TEAD1.H12INVIVO.1.P.C.pwm
PFM	TEAD1.H12INVIVO.1.P.C.pfm
Alignment	TEAD1.H12INVIVO.1.P.C.words.tsv
Threshold to P-value map	TEAD1.H12INVIVO.1.P.C.thr
Motif in other formats
JASPAR format	TEAD1.H12INVIVO.1.P.C_jaspar_format.txt
MEME format	TEAD1.H12INVIVO.1.P.C_meme_format.meme
Transfac format	TEAD1.H12INVIVO.1.P.C_transfac_format.txt
Homer format	TEAD1.H12INVIVO.1.P.C_homer_format_0.001.txt TEAD1.H12INVIVO.1.P.C_homer_format_0.0005.txt TEAD1.H12INVIVO.1.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	587.0	21.0	357.0	35.0
02	329.0	626.0	37.0	8.0
03	989.0	6.0	4.0	1.0
04	0.0	10.0	7.0	983.0
05	35.0	11.0	63.0	891.0
06	3.0	944.0	10.0	43.0
07	24.0	764.0	1.0	211.0
08	388.0	45.0	13.0	554.0
09	178.0	111.0	485.0	226.0
10	297.0	117.0	479.0	107.0
11	311.0	484.0	165.0	40.0
12	768.0	82.0	52.0	98.0
13	113.0	104.0	97.0	686.0

PFM

	A	C	G	T
01	0.587	0.021	0.357	0.035
02	0.329	0.626	0.037	0.008
03	0.989	0.006	0.004	0.001
04	0.0	0.01	0.007	0.983
05	0.035	0.011	0.063	0.891
06	0.003	0.944	0.01	0.043
07	0.024	0.764	0.001	0.211
08	0.388	0.045	0.013	0.554
09	0.178	0.111	0.485	0.226
10	0.297	0.117	0.479	0.107
11	0.311	0.484	0.165	0.04
12	0.768	0.082	0.052	0.098
13	0.113	0.104	0.097	0.686

PWM

	A	C	G	T
01	0.85	-2.405	0.354	-1.925
02	0.273	0.914	-1.872	-3.253
03	1.37	-3.484	-3.783	-4.525
04	-4.982	-3.066	-3.362	1.364
05	-1.925	-2.985	-1.358	1.266
06	-3.975	1.324	-3.066	-1.728
07	-2.281	1.112	-4.525	-0.168
08	0.437	-1.684	-2.839	0.792
09	-0.337	-0.803	0.659	-0.1
10	0.171	-0.752	0.647	-0.84
11	0.217	0.657	-0.412	-1.797
12	1.118	-1.101	-1.544	-0.926
13	-0.786	-0.867	-0.936	1.005

Standard thresholds

P-value	Threshold
0.001	4.00371
0.0005	5.050515
0.0001	7.17501