LEF1.H12INVIVO.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LEF1.H12INVIVO.1.P.B
Gene (human)	LEF1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Lef1
Gene synonyms (mouse)	Lef-1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	15
Consensus	YbYCTTTGWWvTbYh
GC content	36.83%
Information content (bits; total / per base)	12.101 / 0.807
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	5 (27)	0.706	0.759	0.582	0.645	0.74	0.846	2.401	3.099	37.886	115.0
Mouse	3 (19)	0.61	0.755	0.483	0.645	0.661	0.796	1.828	2.508	32.745	160.398

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.83	0.798	0.693	0.702	0.571	0.612
Overall, 6 experiments	best	0.971	0.958	0.862	0.855	0.713	0.712
Methyl HT-SELEX, 2 experiments	median	0.958	0.942	0.815	0.816	0.637	0.683
Methyl HT-SELEX, 2 experiments	best	0.971	0.958	0.862	0.855	0.67	0.712
Non-Methyl HT-SELEX, 4 experiments	median	0.659	0.646	0.571	0.578	0.525	0.542
Non-Methyl HT-SELEX, 4 experiments	best	0.894	0.85	0.813	0.773	0.713	0.694

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.578	0.253	0.53	0.314

TF superclass	Other all-alpha-helical DNA-binding domains {4} (TFClass)
TF class	High-mobility group (HMG) domain factors {4.1} (TFClass)
TF family	TCF7-related {4.1.3} (TFClass)
TF subfamily	{4.1.3.0} (TFClass)
TFClass ID	TFClass: 4.1.3.0.4
HGNC	HGNC:6551
MGI	MGI:96770
EntrezGene (human)	GeneID:51176 (SSTAR profile)
EntrezGene (mouse)	GeneID:16842 (SSTAR profile)
UniProt ID (human)	LEF1_HUMAN
UniProt ID (mouse)	LEF1_MOUSE
UniProt AC (human)	Q9UJU2 (TFClass)
UniProt AC (mouse)	P27782 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	5 human, 3 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	LEF1.H12INVIVO.1.P.B.pcm
PWM	LEF1.H12INVIVO.1.P.B.pwm
PFM	LEF1.H12INVIVO.1.P.B.pfm
Alignment	LEF1.H12INVIVO.1.P.B.words.tsv
Threshold to P-value map	LEF1.H12INVIVO.1.P.B.thr
Motif in other formats
JASPAR format	LEF1.H12INVIVO.1.P.B_jaspar_format.txt
MEME format	LEF1.H12INVIVO.1.P.B_meme_format.meme
Transfac format	LEF1.H12INVIVO.1.P.B_transfac_format.txt
Homer format	LEF1.H12INVIVO.1.P.B_homer_format_0.001.txt LEF1.H12INVIVO.1.P.B_homer_format_0.0005.txt LEF1.H12INVIVO.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	96.0	197.0	86.0	621.0
02	38.0	258.0	195.0	509.0
03	39.0	625.0	102.0	234.0
04	20.0	764.0	10.0	206.0
05	35.0	27.0	1.0	937.0
06	3.0	38.0	8.0	951.0
07	7.0	5.0	6.0	982.0
08	21.0	213.0	749.0	17.0
09	737.0	35.0	22.0	206.0
10	519.0	35.0	127.0	319.0
11	385.0	191.0	320.0	104.0
12	46.0	107.0	33.0	814.0
13	44.0	272.0	443.0	241.0
14	68.0	360.0	64.0	508.0
15	435.0	165.0	67.0	333.0

PFM

	A	C	G	T
01	0.096	0.197	0.086	0.621
02	0.038	0.258	0.195	0.509
03	0.039	0.625	0.102	0.234
04	0.02	0.764	0.01	0.206
05	0.035	0.027	0.001	0.937
06	0.003	0.038	0.008	0.951
07	0.007	0.005	0.006	0.982
08	0.021	0.213	0.749	0.017
09	0.737	0.035	0.022	0.206
10	0.519	0.035	0.127	0.319
11	0.385	0.191	0.32	0.104
12	0.046	0.107	0.033	0.814
13	0.044	0.272	0.443	0.241
14	0.068	0.36	0.064	0.508
15	0.435	0.165	0.067	0.333

PWM

	A	C	G	T
01	-0.946	-0.236	-1.054	0.906
02	-1.846	0.031	-0.247	0.707
03	-1.821	0.912	-0.887	-0.066
04	-2.45	1.112	-3.066	-0.192
05	-1.925	-2.171	-4.525	1.316
06	-3.975	-1.846	-3.253	1.331
07	-3.362	-3.622	-3.484	1.363
08	-2.405	-0.159	1.093	-2.598
09	1.077	-1.925	-2.362	-0.192
10	0.727	-1.925	-0.671	0.242
11	0.429	-0.267	0.245	-0.867
12	-1.663	-0.84	-1.981	1.176
13	-1.706	0.084	0.569	-0.036
14	-1.284	0.363	-1.343	0.706
15	0.551	-0.412	-1.298	0.285

Standard thresholds

P-value	Threshold
0.001	4.16871
0.0005	5.14676
0.0001	7.15391