TEAD1.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD1.H12INVIVO.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	13
Consensus	hnRCATTCCWRvv
GC content	50.75%
Information content (bits; total / per base)	12.867 / 0.99
Data sources	ChIP-Seq + HT-SELEX + Methyl-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	12 (82)	0.91	0.952	0.83	0.899	0.909	0.947	3.65	4.392	306.829	642.796
Mouse	5 (31)	0.925	0.949	0.863	0.901	0.908	0.931	3.703	4.387	480.495	778.398

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.871	0.841	0.81	0.788	0.763	0.748
Overall, 4 experiments	best	0.972	0.951	0.962	0.937	0.941	0.912
Methyl HT-SELEX, 1 experiments	median	0.968	0.944	0.956	0.928	0.934	0.902
Methyl HT-SELEX, 1 experiments	best	0.968	0.944	0.956	0.928	0.934	0.902
Non-Methyl HT-SELEX, 3 experiments	median	0.775	0.737	0.663	0.648	0.592	0.593
Non-Methyl HT-SELEX, 3 experiments	best	0.972	0.951	0.962	0.937	0.941	0.912

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	100.0	4.413	0.34	0.145

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.795	0.596	0.797	0.585

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.H12INVIVO.0.PSM.A.pcm
PWM	TEAD1.H12INVIVO.0.PSM.A.pwm
PFM	TEAD1.H12INVIVO.0.PSM.A.pfm
Alignment	TEAD1.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	TEAD1.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	TEAD1.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	TEAD1.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	TEAD1.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	TEAD1.H12INVIVO.0.PSM.A_homer_format_0.001.txt TEAD1.H12INVIVO.0.PSM.A_homer_format_0.0005.txt TEAD1.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	153.0	419.0	150.0	278.0
02	179.0	384.0	171.0	266.0
03	544.0	11.0	389.0	56.0
04	148.0	839.0	12.0	1.0
05	996.0	2.0	2.0	0.0
06	0.0	0.0	0.0	1000.0
07	74.0	1.0	15.0	910.0
08	1.0	990.0	4.0	5.0
09	1.0	931.0	0.0	68.0
10	519.0	43.0	29.0	409.0
11	148.0	71.0	648.0	133.0
12	110.0	311.0	495.0	84.0
13	239.0	428.0	252.0	81.0

PFM

	A	C	G	T
01	0.153	0.419	0.15	0.278
02	0.179	0.384	0.171	0.266
03	0.544	0.011	0.389	0.056
04	0.148	0.839	0.012	0.001
05	0.996	0.002	0.002	0.0
06	0.0	0.0	0.0	1.0
07	0.074	0.001	0.015	0.91
08	0.001	0.99	0.004	0.005
09	0.001	0.931	0.0	0.068
10	0.519	0.043	0.029	0.409
11	0.148	0.071	0.648	0.133
12	0.11	0.311	0.495	0.084
13	0.239	0.428	0.252	0.081

PWM

	A	C	G	T
01	-0.487	0.514	-0.506	0.105
02	-0.331	0.427	-0.377	0.062
03	0.774	-2.985	0.44	-1.473
04	-0.52	1.206	-2.909	-4.525
05	1.377	-4.213	-4.213	-4.982
06	-4.982	-4.982	-4.982	1.381
07	-1.201	-4.525	-2.711	1.287
08	-4.525	1.371	-3.783	-3.622
09	-4.525	1.31	-4.982	-1.284
10	0.727	-1.728	-2.103	0.49
11	-0.52	-1.242	0.948	-0.625
12	-0.812	0.217	0.68	-1.077
13	-0.045	0.535	0.008	-1.113

Standard thresholds

P-value	Threshold
0.001	3.52601
0.0005	4.75756
0.0001	7.25611