TEAD4.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD4.H12INVIVO.0.PS.A
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	0
Quality	A

Motif length	12
Consensus	ndCATTCCWRvv
GC content	52.32%
Information content (bits; total / per base)	12.842 / 1.07
Data sources	ChIP-Seq + HT-SELEX
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	27 (163)	0.869	0.958	0.792	0.922	0.849	0.946	3.223	4.339	235.066	634.456
Mouse	17 (104)	0.9	0.954	0.832	0.908	0.889	0.942	3.339	4.072	206.324	557.027

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.84	0.797	0.722	0.701	0.63	0.63
Non-Methyl HT-SELEX, 2 experiments	best	0.902	0.863	0.775	0.754	0.662	0.665

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	8.762	15.58	0.143	0.04

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.0.PS.A.pcm
PWM	TEAD4.H12INVIVO.0.PS.A.pwm
PFM	TEAD4.H12INVIVO.0.PS.A.pfm
Alignment	TEAD4.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	TEAD4.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	TEAD4.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	TEAD4.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	TEAD4.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	TEAD4.H12INVIVO.0.PS.A_homer_format_0.001.txt TEAD4.H12INVIVO.0.PS.A_homer_format_0.0005.txt TEAD4.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	157.0	381.0	212.0	250.0
02	494.0	2.0	494.0	10.0
03	204.0	756.0	40.0	0.0
04	991.0	2.0	4.0	3.0
05	2.0	0.0	1.0	997.0
06	48.0	4.0	35.0	913.0
07	4.0	982.0	12.0	2.0
08	0.0	934.0	0.0	66.0
09	530.0	35.0	35.0	400.0
10	100.0	83.0	731.0	86.0
11	125.0	265.0	553.0	57.0
12	201.0	362.0	355.0	82.0

PFM

	A	C	G	T
01	0.157	0.381	0.212	0.25
02	0.494	0.002	0.494	0.01
03	0.204	0.756	0.04	0.0
04	0.991	0.002	0.004	0.003
05	0.002	0.0	0.001	0.997
06	0.048	0.004	0.035	0.913
07	0.004	0.982	0.012	0.002
08	0.0	0.934	0.0	0.066
09	0.53	0.035	0.035	0.4
10	0.1	0.083	0.731	0.086
11	0.125	0.265	0.553	0.057
12	0.201	0.362	0.355	0.082

PWM

	A	C	G	T
01	-0.461	0.419	-0.164	0.0
02	0.678	-4.213	0.678	-3.066
03	-0.202	1.102	-1.797	-4.982
04	1.372	-4.213	-3.783	-3.975
05	-4.213	-4.982	-4.525	1.378
06	-1.622	-3.783	-1.925	1.29
07	-3.783	1.363	-2.909	-4.213
08	-4.982	1.313	-4.982	-1.313
09	0.748	-1.925	-1.925	0.467
10	-0.906	-1.089	1.068	-1.054
11	-0.686	0.058	0.79	-1.455
12	-0.216	0.368	0.349	-1.101

Standard thresholds

P-value	Threshold
0.001	3.59353
0.0005	4.796325
0.0001	7.22782