TEAD4.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD4.H12INVITRO.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	nRMATTCCWdvv
GC content	47.31%
Information content (bits; total / per base)	11.319 / 0.943
Data sources	ChIP-Seq + HT-SELEX
Aligned words	991

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)	0.872	0.953	0.786	0.908	0.858	0.942	3.251	4.194	241.252	634.745
Mouse	17 (104)	0.901	0.95	0.825	0.905	0.89	0.939	3.378	4.073	211.511	554.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.847	0.806	0.735	0.712	0.637	0.637
Non-Methyl HT-SELEX, 2 experiments	best	0.908	0.874	0.787	0.766	0.67	0.673

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	8.987	16.126	0.146	0.043

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.H12INVITRO.0.PS.A.pcm
PWM	TEAD4.H12INVITRO.0.PS.A.pwm
PFM	TEAD4.H12INVITRO.0.PS.A.pfm
Alignment	TEAD4.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	TEAD4.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	TEAD4.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	TEAD4.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	TEAD4.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	TEAD4.H12INVITRO.0.PS.A_homer_format_0.001.txt TEAD4.H12INVITRO.0.PS.A_homer_format_0.0005.txt TEAD4.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	188.0	355.0	183.0	265.0
02	566.0	17.0	387.0	21.0
03	221.0	714.0	53.0	3.0
04	977.0	10.0	1.0	3.0
05	4.0	1.0	3.0	983.0
06	63.0	1.0	42.0	885.0
07	0.0	962.0	12.0	17.0
08	12.0	842.0	3.0	134.0
09	439.0	31.0	28.0	493.0
10	125.0	100.0	550.0	216.0
11	194.0	250.0	393.0	154.0
12	215.0	376.0	312.0	88.0

PFM

	A	C	G	T
01	0.19	0.358	0.185	0.267
02	0.571	0.017	0.391	0.021
03	0.223	0.72	0.053	0.003
04	0.986	0.01	0.001	0.003
05	0.004	0.001	0.003	0.992
06	0.064	0.001	0.042	0.893
07	0.0	0.971	0.012	0.017
08	0.012	0.85	0.003	0.135
09	0.443	0.031	0.028	0.497
10	0.126	0.101	0.555	0.218
11	0.196	0.252	0.397	0.155
12	0.217	0.379	0.315	0.089

PWM

	A	C	G	T
01	-0.274	0.358	-0.3	0.067
02	0.822	-2.59	0.444	-2.396
03	-0.113	1.054	-1.517	-3.967
04	1.367	-3.058	-4.517	-3.967
05	-3.775	-4.517	-3.967	1.373
06	-1.349	-4.517	-1.741	1.268
07	-4.974	1.351	-2.9	-2.59
08	-2.9	1.218	-3.967	-0.609
09	0.569	-2.031	-2.127	0.685
10	-0.677	-0.897	0.794	-0.136
11	-0.243	0.009	0.459	-0.471
12	-0.141	0.415	0.229	-1.023

Standard thresholds

P-value	Threshold
0.001	4.30602
0.0005	5.351765
0.0001	7.46998