TEAD4.H12INVIVO.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD4.H12INVIVO.1.P.B
Gene (human)	TEAD4 (GeneCards)
Gene synonyms (human)	RTEF1, TCF13L1, TEF3
Gene (mouse)	Tead4
Gene synonyms (mouse)	Tcf13r1, Tef3, Tefr1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	16
Consensus	RMATTCCWRvvMbdbb
GC content	47.01%
Information content (bits; total / per base)	12.644 / 0.79
Data sources	ChIP-Seq
Aligned words	1032

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	27 (163)	0.842	0.951	0.755	0.904	0.83	0.939	3.035	4.612	214.602	601.796
Mouse	17 (104)	0.89	0.957	0.8	0.919	0.861	0.94	3.24	4.539	202.933	447.319

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.83	0.796	0.715	0.697	0.623	0.626
Non-Methyl HT-SELEX, 2 experiments	best	0.894	0.867	0.765	0.749	0.654	0.66

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	9.759	16.299	0.125	0.037

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: 3.6.1.0.2
HGNC	HGNC:11717
MGI	MGI:106907
EntrezGene (human)	GeneID:7004 (SSTAR profile)
EntrezGene (mouse)	GeneID:21679 (SSTAR profile)
UniProt ID (human)	TEAD4_HUMAN
UniProt ID (mouse)	TEAD4_MOUSE
UniProt AC (human)	Q15561 (TFClass)
UniProt AC (mouse)	Q62296 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	27 human, 17 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	TEAD4.H12INVIVO.1.P.B.pcm
PWM	TEAD4.H12INVIVO.1.P.B.pwm
PFM	TEAD4.H12INVIVO.1.P.B.pfm
Alignment	TEAD4.H12INVIVO.1.P.B.words.tsv
Threshold to P-value map	TEAD4.H12INVIVO.1.P.B.thr
Motif in other formats
JASPAR format	TEAD4.H12INVIVO.1.P.B_jaspar_format.txt
MEME format	TEAD4.H12INVIVO.1.P.B_meme_format.meme
Transfac format	TEAD4.H12INVIVO.1.P.B_transfac_format.txt
Homer format	TEAD4.H12INVIVO.1.P.B_homer_format_0.001.txt TEAD4.H12INVIVO.1.P.B_homer_format_0.0005.txt TEAD4.H12INVIVO.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	539.0	13.0	443.0	37.0
02	243.0	661.0	128.0	0.0
03	1023.0	0.0	6.0	3.0
04	0.0	4.0	1.0	1027.0
05	78.0	7.0	55.0	892.0
06	3.0	988.0	29.0	12.0
07	5.0	878.0	1.0	148.0
08	375.0	65.0	39.0	553.0
09	152.0	128.0	628.0	124.0
10	246.0	166.0	511.0	109.0
11	267.0	502.0	234.0	29.0
12	659.0	163.0	95.0	115.0
13	117.0	149.0	146.0	620.0
14	248.0	113.0	264.0	407.0
15	115.0	482.0	232.0	203.0
16	101.0	472.0	159.0	300.0

PFM

	A	C	G	T
01	0.522	0.013	0.429	0.036
02	0.235	0.641	0.124	0.0
03	0.991	0.0	0.006	0.003
04	0.0	0.004	0.001	0.995
05	0.076	0.007	0.053	0.864
06	0.003	0.957	0.028	0.012
07	0.005	0.851	0.001	0.143
08	0.363	0.063	0.038	0.536
09	0.147	0.124	0.609	0.12
10	0.238	0.161	0.495	0.106
11	0.259	0.486	0.227	0.028
12	0.639	0.158	0.092	0.111
13	0.113	0.144	0.141	0.601
14	0.24	0.109	0.256	0.394
15	0.111	0.467	0.225	0.197
16	0.098	0.457	0.154	0.291

PWM

	A	C	G	T
01	0.733	-2.869	0.538	-1.903
02	-0.059	0.937	-0.694	-5.009
03	1.373	-5.009	-3.514	-4.005
04	-5.009	-3.813	-4.554	1.376
05	-1.181	-3.392	-1.521	1.236
06	-4.005	1.338	-2.134	-2.94
07	-3.652	1.22	-4.554	-0.551
08	0.372	-1.359	-1.853	0.759
09	-0.524	-0.694	0.886	-0.725
10	-0.047	-0.437	0.68	-0.853
11	0.034	0.662	-0.097	-2.134
12	0.934	-0.455	-0.988	-0.8
13	-0.783	-0.544	-0.564	0.873
14	-0.039	-0.817	0.023	0.453
15	-0.8	0.622	-0.105	-0.238
16	-0.928	0.601	-0.48	0.15

Standard thresholds

P-value	Threshold
0.001	3.91861
0.0005	5.01036
0.0001	7.18966