TEAD1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD1.H12INVITRO.0.PSM.A
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	0
Quality	A

Motif length	10
Consensus	nRCATWCCWd
GC content	45.58%
Information content (bits; total / per base)	9.776 / 0.978
Data sources	ChIP-Seq + HT-SELEX + Methyl-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	12 (82)	0.894	0.939	0.802	0.875	0.896	0.93	3.358	3.775	288.494	594.31
Mouse	5 (31)	0.91	0.928	0.834	0.868	0.895	0.918	3.471	3.826	431.699	717.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.877	0.848	0.814	0.793	0.766	0.752
Overall, 4 experiments	best	0.974	0.953	0.963	0.939	0.941	0.914
Methyl HT-SELEX, 1 experiments	median	0.97	0.947	0.959	0.933	0.937	0.907
Methyl HT-SELEX, 1 experiments	best	0.97	0.947	0.959	0.933	0.937	0.907
Non-Methyl HT-SELEX, 3 experiments	median	0.783	0.748	0.668	0.654	0.595	0.597
Non-Methyl HT-SELEX, 3 experiments	best	0.974	0.953	0.963	0.939	0.941	0.914

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	100.0	4.408	0.28	0.142

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.784	0.556	0.8	0.586

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.0.PSM.A.pcm
PWM	TEAD1.H12INVITRO.0.PSM.A.pwm
PFM	TEAD1.H12INVITRO.0.PSM.A.pfm
Alignment	TEAD1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	TEAD1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	TEAD1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	TEAD1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	TEAD1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	TEAD1.H12INVITRO.0.PSM.A_homer_format_0.001.txt TEAD1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt TEAD1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	211.0	348.0	171.0	261.0
02	572.0	28.0	343.0	48.0
03	142.0	787.0	55.0	7.0
04	943.0	29.0	11.0	8.0
05	13.0	14.0	28.0	936.0
06	139.0	3.0	82.0	767.0
07	8.0	904.0	48.0	31.0
08	16.0	879.0	1.0	95.0
09	438.0	61.0	43.0	449.0
10	179.0	105.0	577.0	130.0

PFM

	A	C	G	T
01	0.213	0.351	0.173	0.263
02	0.577	0.028	0.346	0.048
03	0.143	0.794	0.055	0.007
04	0.952	0.029	0.011	0.008
05	0.013	0.014	0.028	0.945
06	0.14	0.003	0.083	0.774
07	0.008	0.912	0.048	0.031
08	0.016	0.887	0.001	0.096
09	0.442	0.062	0.043	0.453
10	0.181	0.106	0.582	0.131

PWM

	A	C	G	T
01	-0.159	0.338	-0.368	0.052
02	0.833	-2.127	0.323	-1.613
03	-0.551	1.151	-1.481	-3.353
04	1.332	-2.094	-2.976	-3.245
05	-2.83	-2.764	-2.127	1.324
06	-0.573	-3.967	-1.092	1.125
07	-3.245	1.289	-1.613	-2.031
08	-2.644	1.261	-4.517	-0.947
09	0.567	-1.381	-1.719	0.591
10	-0.322	-0.849	0.841	-0.639

Standard thresholds

P-value	Threshold
0.001	4.762205
0.0005	5.65557
0.0001	7.37938