MEF2C.H12CORE.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEF2C.H12CORE.1.SM.B
Gene (human)	MEF2C (GeneCards)
Gene synonyms (human)
Gene (mouse)	Mef2c
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	17
Consensus	ndMCvnATTWGGhWhvn
GC content	42.36%
Information content (bits; total / per base)	11.32 / 0.666
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	8733

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	2 (12)	0.636	0.697	0.49	0.51	0.555	0.629	1.334	1.501	24.461	59.77
Mouse	12 (78)	0.716	0.738	0.542	0.594	0.627	0.651	1.503	1.633	38.916	184.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.98	0.97	0.925	0.909	0.775	0.785
Overall, 2 experiments	best	0.981	0.971	0.931	0.915	0.789	0.795
Methyl HT-SELEX, 1 experiments	median	0.979	0.969	0.919	0.903	0.762	0.775
Methyl HT-SELEX, 1 experiments	best	0.979	0.969	0.919	0.903	0.762	0.775
Non-Methyl HT-SELEX, 1 experiments	median	0.981	0.971	0.931	0.915	0.789	0.795
Non-Methyl HT-SELEX, 1 experiments	best	0.981	0.971	0.931	0.915	0.789	0.795

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.961	0.397	0.881	0.636
batch 2	0.575	0.049	0.361	0.222

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: 5.1.1.1.3
HGNC	HGNC:6996
MGI	MGI:99458
EntrezGene (human)	GeneID:4208 (SSTAR profile)
EntrezGene (mouse)	GeneID:17260 (SSTAR profile)
UniProt ID (human)	MEF2C_HUMAN
UniProt ID (mouse)	MEF2C_MOUSE
UniProt AC (human)	Q06413 (TFClass)
UniProt AC (mouse)	Q8CFN5 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 12 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	MEF2C.H12CORE.1.SM.B.pcm
PWM	MEF2C.H12CORE.1.SM.B.pwm
PFM	MEF2C.H12CORE.1.SM.B.pfm
Alignment	MEF2C.H12CORE.1.SM.B.words.tsv
Threshold to P-value map	MEF2C.H12CORE.1.SM.B.thr
Motif in other formats
JASPAR format	MEF2C.H12CORE.1.SM.B_jaspar_format.txt
MEME format	MEF2C.H12CORE.1.SM.B_meme_format.meme
Transfac format	MEF2C.H12CORE.1.SM.B_transfac_format.txt
Homer format	MEF2C.H12CORE.1.SM.B_homer_format_0.001.txt MEF2C.H12CORE.1.SM.B_homer_format_0.0005.txt MEF2C.H12CORE.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1985.5	1630.5	2285.5	2831.5
02	1083.25	832.25	3174.25	3643.25
03	2307.0	5712.0	250.0	464.0
04	95.0	6638.0	74.0	1926.0
05	3209.0	2672.0	1608.0	1244.0
06	3248.0	1367.0	2180.0	1938.0
07	6662.0	33.0	161.0	1877.0
08	509.0	3.0	21.0	8200.0
09	1967.0	15.0	37.0	6714.0
10	2725.0	37.0	86.0	5885.0
11	1624.0	1.0	7107.0	1.0
12	5.0	13.0	8648.0	67.0
13	4125.0	1652.0	975.0	1981.0
14	5413.0	859.0	796.0	1665.0
15	3400.0	2828.0	1133.0	1372.0
16	1629.75	3745.75	1958.75	1398.75
17	2543.25	1802.25	2548.25	1839.25

PFM

	A	C	G	T
01	0.227	0.187	0.262	0.324
02	0.124	0.095	0.363	0.417
03	0.264	0.654	0.029	0.053
04	0.011	0.76	0.008	0.221
05	0.367	0.306	0.184	0.142
06	0.372	0.157	0.25	0.222
07	0.763	0.004	0.018	0.215
08	0.058	0.0	0.002	0.939
09	0.225	0.002	0.004	0.769
10	0.312	0.004	0.01	0.674
11	0.186	0.0	0.814	0.0
12	0.001	0.001	0.99	0.008
13	0.472	0.189	0.112	0.227
14	0.62	0.098	0.091	0.191
15	0.389	0.324	0.13	0.157
16	0.187	0.429	0.224	0.16
17	0.291	0.206	0.292	0.211

PWM

	A	C	G	T
01	-0.095	-0.292	0.046	0.26
02	-0.7	-0.963	0.374	0.512
03	0.055	0.961	-2.159	-1.545
04	-3.112	1.111	-3.355	-0.125
05	0.385	0.202	-0.305	-0.562
06	0.397	-0.468	-0.001	-0.119
07	1.115	-4.127	-2.594	-0.151
08	-1.453	-6.028	-4.542	1.323
09	-0.104	-4.841	-4.019	1.123
10	0.221	-4.019	-3.209	0.991
11	-0.296	-6.505	1.18	-6.505
12	-5.706	-4.964	1.376	-3.452
13	0.636	-0.278	-0.805	-0.097
14	0.907	-0.931	-1.007	-0.271
15	0.443	0.259	-0.655	-0.464
16	-0.292	0.539	-0.108	-0.445
17	0.152	-0.192	0.154	-0.171

Standard thresholds

P-value	Threshold
0.001	4.34856
0.0005	5.42451
0.0001	7.42271