MEF2B.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEF2B.H12INVIVO.0.PS.A
Gene (human)	MEF2B (GeneCards)
Gene synonyms (human)	XMEF2
Gene (mouse)	Mef2b
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	ddCTATTTYWGKh
GC content	33.56%
Information content (bits; total / per base)	11.776 / 0.906
Data sources	ChIP-Seq + HT-SELEX
Aligned words	999

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	16 (100)	0.815	0.894	0.71	0.837	0.847	0.909	2.931	3.947	153.427	412.569

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.893	0.841	0.839	0.788	0.755	0.721
Overall, 3 experiments	best	0.929	0.891	0.875	0.834	0.779	0.753
Methyl HT-SELEX, 1 experiments	median	0.929	0.891	0.875	0.834	0.779	0.753
Methyl HT-SELEX, 1 experiments	best	0.929	0.891	0.875	0.834	0.779	0.753
Non-Methyl HT-SELEX, 2 experiments	median	0.728	0.718	0.675	0.663	0.625	0.619
Non-Methyl HT-SELEX, 2 experiments	best	0.893	0.841	0.839	0.788	0.755	0.721

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.578	3.756	0.183	0.069

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.59	0.089	0.476	0.333
batch 2	0.666	0.223	0.471	0.293

TF superclass	alpha-Helices exposed by beta-structures {5} (TFClass)
TF class	MADS box factors {5.1} (TFClass)
TF family	Regulators of differentiation {5.1.1} (TFClass)
TF subfamily	MEF2 {5.1.1.1} (TFClass)
TFClass ID	TFClass: 5.1.1.1.2
HGNC	HGNC:6995
MGI	MGI:104526
EntrezGene (human)	GeneID:100271849 (SSTAR profile) GeneID:4207 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	MEF2B_HUMAN
UniProt ID (mouse)	MEF2B_MOUSE
UniProt AC (human)	Q02080 (TFClass)
UniProt AC (mouse)	O55087 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	16 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	1

PCM	MEF2B.H12INVIVO.0.PS.A.pcm
PWM	MEF2B.H12INVIVO.0.PS.A.pwm
PFM	MEF2B.H12INVIVO.0.PS.A.pfm
Alignment	MEF2B.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	MEF2B.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	MEF2B.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	MEF2B.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	MEF2B.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	MEF2B.H12INVIVO.0.PS.A_homer_format_0.001.txt MEF2B.H12INVIVO.0.PS.A_homer_format_0.0005.txt MEF2B.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	266.0	65.0	256.0	412.0
02	109.0	99.0	429.0	362.0
03	27.0	800.0	26.0	146.0
04	3.0	121.0	1.0	874.0
05	869.0	27.0	34.0	69.0
06	111.0	6.0	3.0	879.0
07	102.0	5.0	6.0	886.0
08	30.0	45.0	6.0	918.0
09	145.0	198.0	24.0	632.0
10	219.0	49.0	121.0	610.0
11	278.0	1.0	717.0	3.0
12	62.0	39.0	773.0	125.0
13	323.0	378.0	129.0	169.0

PFM

	A	C	G	T
01	0.266	0.065	0.256	0.412
02	0.109	0.099	0.429	0.362
03	0.027	0.801	0.026	0.146
04	0.003	0.121	0.001	0.875
05	0.87	0.027	0.034	0.069
06	0.111	0.006	0.003	0.88
07	0.102	0.005	0.006	0.887
08	0.03	0.045	0.006	0.919
09	0.145	0.198	0.024	0.633
10	0.219	0.049	0.121	0.611
11	0.278	0.001	0.718	0.003
12	0.062	0.039	0.774	0.125
13	0.323	0.378	0.129	0.169

PWM

	A	C	G	T
01	0.063	-1.327	0.025	0.498
02	-0.82	-0.915	0.538	0.369
03	-2.17	1.159	-2.205	-0.532
04	-3.974	-0.717	-4.524	1.248
05	1.242	-2.17	-1.951	-1.269
06	-0.802	-3.483	-3.974	1.253
07	-0.886	-3.621	-3.483	1.261
08	-2.07	-1.683	-3.483	1.297
09	-0.539	-0.23	-2.28	0.924
10	-0.13	-1.601	-0.717	0.889
11	0.106	-4.524	1.05	-3.974
12	-1.373	-1.82	1.125	-0.685
13	0.256	0.412	-0.654	-0.387

Standard thresholds

P-value	Threshold
0.001	4.28041
0.0005	5.235765
0.0001	7.19276