TEAD4.H13RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD4.H13RSNP.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	nRMATTCCWvnv
GC content	47.59%
Information content (bits; total / per base)	12.588 / 1.049
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1000
Previous names	TEAD4.H12RSNP.0.PS.A

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)	0.863	0.944	0.774	0.894	0.854	0.935	3.114	4.029	239.469	641.959
Mouse	17 (104)	0.898	0.948	0.82	0.902	0.888	0.931	3.345	3.871	200.784	536.229

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.842	0.804	0.719	0.702	0.626	0.629
Non-Methyl HT-SELEX, 2 experiments	best	0.906	0.873	0.772	0.756	0.659	0.665

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	11.627	18.233	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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	TEAD4.H13RSNP.0.PS.A.pcm
PWM	TEAD4.H13RSNP.0.PS.A.pwm
PFM	TEAD4.H13RSNP.0.PS.A.pfm
Threshold to P-value map	TEAD4.H13RSNP.0.PS.A.thr
Motif in other formats
JASPAR format	TEAD4.H13RSNP.0.PS.A_jaspar_format.txt
MEME format	TEAD4.H13RSNP.0.PS.A_meme_format.meme
Transfac format	TEAD4.H13RSNP.0.PS.A_transfac_format.txt
Homer format	TEAD4.H13RSNP.0.PS.A_homer_format_0.001.txt TEAD4.H13RSNP.0.PS.A_homer_format_0.0005.txt TEAD4.H13RSNP.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	176.0	287.0	318.0	219.0
02	572.0	14.0	408.0	6.0
03	284.0	687.0	27.0	2.0
04	997.0	1.0	1.0	1.0
05	0.0	1.0	0.0	999.0
06	11.0	3.0	8.0	978.0
07	1.0	988.0	0.0	11.0
08	1.0	951.0	0.0	48.0
09	415.0	16.0	13.0	556.0
10	187.0	178.0	486.0	149.0
11	269.0	249.0	334.0	148.0
12	209.0	431.0	310.0	50.0

PFM

	A	C	G	T
01	0.176	0.287	0.318	0.219
02	0.572	0.014	0.408	0.006
03	0.284	0.687	0.027	0.002
04	0.997	0.001	0.001	0.001
05	0.0	0.001	0.0	0.999
06	0.011	0.003	0.008	0.978
07	0.001	0.988	0.0	0.011
08	0.001	0.951	0.0	0.048
09	0.415	0.016	0.013	0.556
10	0.187	0.178	0.486	0.149
11	0.269	0.249	0.334	0.148
12	0.209	0.431	0.31	0.05

PWM

	A	C	G	T
01	-0.348	0.137	0.239	-0.131
02	0.824	-2.773	0.487	-3.484
03	0.127	1.006	-2.171	-4.213
04	1.378	-4.525	-4.525	-4.525
05	-4.982	-4.525	-4.982	1.38
06	-2.985	-3.975	-3.253	1.359
07	-4.525	1.369	-4.982	-2.985
08	-4.525	1.331	-4.982	-1.622
09	0.504	-2.653	-2.839	0.796
10	-0.288	-0.337	0.661	-0.513
11	0.073	-0.004	0.288	-0.52
12	-0.178	0.542	0.214	-1.582

Standard thresholds

P-value	Threshold
0.001	3.464115
0.0005	4.64581
0.0001	7.37877