TEAD1.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TEAD1.H12RSNP.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	12
Consensus	bRCATTCCWdvv
GC content	49.96%
Information content (bits; total / per base)	11.674 / 0.973
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)	0.911	0.948	0.834	0.896	0.904	0.939	3.631	4.201	307.215	641.959
Mouse	5 (31)	0.925	0.947	0.86	0.897	0.908	0.926	3.716	4.262	462.959	769.004

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.873	0.845	0.808	0.788	0.759	0.745
Overall, 4 experiments	best	0.972	0.951	0.959	0.934	0.936	0.906
Methyl HT-SELEX, 1 experiments	median	0.969	0.946	0.954	0.926	0.928	0.896
Methyl HT-SELEX, 1 experiments	best	0.969	0.946	0.954	0.926	0.928	0.896
Non-Methyl HT-SELEX, 3 experiments	median	0.778	0.744	0.662	0.65	0.59	0.594
Non-Methyl HT-SELEX, 3 experiments	best	0.972	0.951	0.959	0.934	0.936	0.906

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	100.0	4.403	0.326	0.143

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.804	0.605	0.797	0.588

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.H12RSNP.0.PSM.A.pcm
PWM	TEAD1.H12RSNP.0.PSM.A.pwm
PFM	TEAD1.H12RSNP.0.PSM.A.pfm
Alignment	TEAD1.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	TEAD1.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	TEAD1.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	TEAD1.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	TEAD1.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	TEAD1.H12RSNP.0.PSM.A_homer_format_0.001.txt TEAD1.H12RSNP.0.PSM.A_homer_format_0.0005.txt TEAD1.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	180.0	421.0	183.0	216.0
02	550.0	14.0	411.0	25.0
03	207.0	750.0	42.0	1.0
04	981.0	2.0	11.0	6.0
05	5.0	1.0	3.0	991.0
06	36.0	3.0	20.0	941.0
07	3.0	955.0	13.0	29.0
08	2.0	910.0	2.0	86.0
09	450.0	45.0	68.0	437.0
10	169.0	118.0	566.0	147.0
11	194.0	353.0	358.0	95.0
12	173.0	415.0	331.0	81.0

PFM

	A	C	G	T
01	0.18	0.421	0.183	0.216
02	0.55	0.014	0.411	0.025
03	0.207	0.75	0.042	0.001
04	0.981	0.002	0.011	0.006
05	0.005	0.001	0.003	0.991
06	0.036	0.003	0.02	0.941
07	0.003	0.955	0.013	0.029
08	0.002	0.91	0.002	0.086
09	0.45	0.045	0.068	0.437
10	0.169	0.118	0.566	0.147
11	0.194	0.353	0.358	0.095
12	0.173	0.415	0.331	0.081

PWM

	A	C	G	T
01	-0.326	0.518	-0.309	-0.145
02	0.785	-2.773	0.494	-2.243
03	-0.187	1.094	-1.75	-4.525
04	1.362	-4.213	-2.985	-3.484
05	-3.622	-4.525	-3.975	1.372
06	-1.898	-3.975	-2.45	1.32
07	-3.975	1.335	-2.839	-2.103
08	-4.213	1.287	-4.213	-1.054
09	0.585	-1.684	-1.284	0.556
10	-0.388	-0.743	0.813	-0.526
11	-0.252	0.343	0.357	-0.956
12	-0.365	0.504	0.279	-1.113

Standard thresholds

P-value	Threshold
0.001	4.149815
0.0005	5.202735
0.0001	7.414375