TEAD1.H12INVITRO.1.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD1.H12INVITRO.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	RMATTCYWbvvWW
GC content	37.16%
Information content (bits; total / per base)	11.88 / 0.914
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)	0.834	0.893	0.724	0.82	0.838	0.912	2.987	4.072	252.524	522.398
Mouse	5 (31)	0.821	0.898	0.699	0.821	0.789	0.878	2.495	3.402	311.167	562.108

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.854	0.827	0.794	0.771	0.743	0.726
Overall, 4 experiments	best	0.964	0.94	0.945	0.915	0.91	0.876
Methyl HT-SELEX, 1 experiments	median	0.964	0.94	0.945	0.915	0.91	0.876
Methyl HT-SELEX, 1 experiments	best	0.964	0.94	0.945	0.915	0.91	0.876
Non-Methyl HT-SELEX, 3 experiments	median	0.751	0.723	0.649	0.637	0.584	0.586
Non-Methyl HT-SELEX, 3 experiments	best	0.958	0.931	0.939	0.906	0.902	0.865

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	16.175	3.508	0.261	0.128

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.796	0.547	0.809	0.581

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.H12INVITRO.1.P.C.pcm
PWM	TEAD1.H12INVITRO.1.P.C.pwm
PFM	TEAD1.H12INVITRO.1.P.C.pfm
Alignment	TEAD1.H12INVITRO.1.P.C.words.tsv
Threshold to P-value map	TEAD1.H12INVITRO.1.P.C.thr
Motif in other formats
JASPAR format	TEAD1.H12INVITRO.1.P.C_jaspar_format.txt
MEME format	TEAD1.H12INVITRO.1.P.C_meme_format.meme
Transfac format	TEAD1.H12INVITRO.1.P.C_transfac_format.txt
Homer format	TEAD1.H12INVITRO.1.P.C_homer_format_0.001.txt TEAD1.H12INVITRO.1.P.C_homer_format_0.0005.txt TEAD1.H12INVITRO.1.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	601.0	25.0	335.0	39.0
02	306.0	668.0	22.0	4.0
03	977.0	5.0	10.0	8.0
04	2.0	3.0	6.0	989.0
05	73.0	11.0	50.0	866.0
06	6.0	844.0	53.0	97.0
07	18.0	645.0	4.0	333.0
08	290.0	62.0	7.0	641.0
09	152.0	177.0	418.0	253.0
10	358.0	120.0	403.0	119.0
11	259.0	529.0	161.0	51.0
12	776.0	68.0	62.0	94.0
13	108.0	65.0	78.0	749.0

PFM

	A	C	G	T
01	0.601	0.025	0.335	0.039
02	0.306	0.668	0.022	0.004
03	0.977	0.005	0.01	0.008
04	0.002	0.003	0.006	0.989
05	0.073	0.011	0.05	0.866
06	0.006	0.844	0.053	0.097
07	0.018	0.645	0.004	0.333
08	0.29	0.062	0.007	0.641
09	0.152	0.177	0.418	0.253
10	0.358	0.12	0.403	0.119
11	0.259	0.529	0.161	0.051
12	0.776	0.068	0.062	0.094
13	0.108	0.065	0.078	0.749

PWM

	A	C	G	T
01	0.873	-2.243	0.291	-1.821
02	0.201	0.979	-2.362	-3.783
03	1.358	-3.622	-3.066	-3.253
04	-4.213	-3.975	-3.484	1.37
05	-1.215	-2.985	-1.582	1.238
06	-3.484	1.212	-1.526	-0.936
07	-2.546	0.944	-3.783	0.285
08	0.147	-1.374	-3.362	0.937
09	-0.493	-0.342	0.511	0.012
10	0.357	-0.727	0.475	-0.735
11	0.035	0.746	-0.436	-1.563
12	1.128	-1.284	-1.374	-0.967
13	-0.83	-1.328	-1.15	1.093

Standard thresholds

P-value	Threshold
0.001	4.22161
0.0005	5.21616
0.0001	7.216465