LEF1.H12RSNP.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LEF1.H12RSNP.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	YbYCTTTSWdnTbbh
GC content	37.04%
Information content (bits; total / per base)	11.045 / 0.736
Data sources	ChIP-Seq
Aligned words	1034

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)	0.68	0.737	0.528	0.601	0.747	0.856	2.443	3.107	32.301	98.824
Mouse	3 (19)	0.592	0.73	0.437	0.574	0.68	0.8	1.912	2.493	24.523	145.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.818	0.785	0.686	0.692	0.571	0.608
Overall, 6 experiments	best	0.968	0.953	0.854	0.846	0.704	0.708
Methyl HT-SELEX, 2 experiments	median	0.952	0.935	0.807	0.807	0.636	0.679
Methyl HT-SELEX, 2 experiments	best	0.968	0.953	0.854	0.846	0.67	0.708
Non-Methyl HT-SELEX, 4 experiments	median	0.658	0.644	0.572	0.578	0.527	0.542
Non-Methyl HT-SELEX, 4 experiments	best	0.881	0.834	0.8	0.758	0.704	0.684

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.587	0.242	0.537	0.323

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.H12RSNP.1.P.B.pcm
PWM	LEF1.H12RSNP.1.P.B.pwm
PFM	LEF1.H12RSNP.1.P.B.pfm
Alignment	LEF1.H12RSNP.1.P.B.words.tsv
Threshold to P-value map	LEF1.H12RSNP.1.P.B.thr
Motif in other formats
JASPAR format	LEF1.H12RSNP.1.P.B_jaspar_format.txt
MEME format	LEF1.H12RSNP.1.P.B_meme_format.meme
Transfac format	LEF1.H12RSNP.1.P.B_transfac_format.txt
Homer format	LEF1.H12RSNP.1.P.B_homer_format_0.001.txt LEF1.H12RSNP.1.P.B_homer_format_0.0005.txt LEF1.H12RSNP.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	99.0	184.0	107.0	644.0
02	24.0	284.0	208.0	518.0
03	45.0	588.0	106.0	295.0
04	11.0	831.0	12.0	180.0
05	58.0	38.0	2.0	936.0
06	2.0	58.0	23.0	951.0
07	2.0	5.0	6.0	1021.0
08	18.0	249.0	701.0	66.0
09	637.0	39.0	38.0	320.0
10	443.0	52.0	140.0	399.0
11	338.0	239.0	256.0	201.0
12	48.0	120.0	33.0	833.0
13	56.0	263.0	406.0	309.0
14	55.0	407.0	100.0	472.0
15	422.0	147.0	103.0	362.0

PFM

	A	C	G	T
01	0.096	0.178	0.103	0.623
02	0.023	0.275	0.201	0.501
03	0.044	0.569	0.103	0.285
04	0.011	0.804	0.012	0.174
05	0.056	0.037	0.002	0.905
06	0.002	0.056	0.022	0.92
07	0.002	0.005	0.006	0.987
08	0.017	0.241	0.678	0.064
09	0.616	0.038	0.037	0.309
10	0.428	0.05	0.135	0.386
11	0.327	0.231	0.248	0.194
12	0.046	0.116	0.032	0.806
13	0.054	0.254	0.393	0.299
14	0.053	0.394	0.097	0.456
15	0.408	0.142	0.1	0.35

PWM

	A	C	G	T
01	-0.949	-0.337	-0.873	0.909
02	-2.314	0.093	-0.216	0.692
03	-1.717	0.818	-0.882	0.131
04	-3.017	1.163	-2.942	-0.359
05	-1.472	-1.879	-4.244	1.282
06	-4.244	-1.472	-2.353	1.298
07	-4.244	-3.654	-3.516	1.369
08	-2.579	-0.037	0.993	-1.346
09	0.898	-1.854	-1.879	0.212
10	0.536	-1.578	-0.608	0.432
11	0.267	-0.078	-0.01	-0.25
12	-1.655	-0.76	-2.014	1.166
13	-1.506	0.017	0.449	0.177
14	-1.523	0.451	-0.939	0.599
15	0.488	-0.559	-0.91	0.335

Standard thresholds

P-value	Threshold
0.001	4.49401
0.0005	5.40306
0.0001	7.25096