LEF1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LEF1.H12INVITRO.0.PSM.A
Gene (human)	LEF1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Lef1
Gene synonyms (mouse)	Lef-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	nbSTTTGATShn
GC content	41.36%
Information content (bits; total / per base)	11.91 / 0.993
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	5877

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)	0.708	0.921	0.563	0.892	0.674	0.897	1.858	4.031	41.174	209.328
Mouse	3 (19)	0.733	0.924	0.673	0.873	0.699	0.91	2.434	3.942	72.745	384.292

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.928	0.919	0.771	0.787	0.625	0.666
Overall, 6 experiments	best	0.997	0.996	0.94	0.939	0.821	0.811
Methyl HT-SELEX, 2 experiments	median	0.995	0.993	0.895	0.901	0.701	0.746
Methyl HT-SELEX, 2 experiments	best	0.997	0.996	0.94	0.939	0.74	0.779
Non-Methyl HT-SELEX, 4 experiments	median	0.71	0.717	0.602	0.619	0.545	0.567
Non-Methyl HT-SELEX, 4 experiments	best	0.978	0.966	0.928	0.909	0.821	0.811

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.605	0.323	0.561	0.349

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.H12INVITRO.0.PSM.A.pcm
PWM	LEF1.H12INVITRO.0.PSM.A.pwm
PFM	LEF1.H12INVITRO.0.PSM.A.pfm
Alignment	LEF1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	LEF1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	LEF1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	LEF1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	LEF1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	LEF1.H12INVITRO.0.PSM.A_homer_format_0.001.txt LEF1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt LEF1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	998.5	2033.5	1180.5	1664.5
02	764.75	2715.75	1286.75	1109.75
03	135.0	4555.0	766.0	421.0
04	174.0	306.0	112.0	5285.0
05	15.0	48.0	9.0	5805.0
06	29.0	99.0	0.0	5749.0
07	2.0	365.0	5495.0	15.0
08	5644.0	129.0	22.0	82.0
09	633.0	130.0	128.0	4986.0
10	238.0	3044.0	2462.0	133.0
11	729.0	1037.0	681.0	3430.0
12	1142.0	1405.0	1156.0	2174.0

PFM

	A	C	G	T
01	0.17	0.346	0.201	0.283
02	0.13	0.462	0.219	0.189
03	0.023	0.775	0.13	0.072
04	0.03	0.052	0.019	0.899
05	0.003	0.008	0.002	0.988
06	0.005	0.017	0.0	0.978
07	0.0	0.062	0.935	0.003
08	0.96	0.022	0.004	0.014
09	0.108	0.022	0.022	0.848
10	0.04	0.518	0.419	0.023
11	0.124	0.176	0.116	0.584
12	0.194	0.239	0.197	0.37

PWM

	A	C	G	T
01	-0.386	0.325	-0.218	0.125
02	-0.652	0.614	-0.132	-0.28
03	-2.373	1.13	-0.65	-1.246
04	-2.123	-1.563	-2.556	1.279
05	-4.451	-3.379	-4.881	1.373
06	-3.855	-2.677	-6.519	1.363
07	-5.866	-1.388	1.318	-4.451
08	1.345	-2.417	-4.109	-2.861
09	-0.84	-2.41	-2.425	1.221
10	-1.813	0.728	0.516	-2.387
11	-0.699	-0.348	-0.767	0.847
12	-0.252	-0.045	-0.239	0.391

Standard thresholds

P-value	Threshold
0.001	4.048745
0.0005	5.128075
0.0001	7.239235