MEF2B.H12INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEF2B.H12INVITRO.1.SM.B
Gene (human)	MEF2B (GeneCards)
Gene synonyms (human)	XMEF2
Gene (mouse)	Mef2b
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	16
Consensus	nhSdWdCCWWATnbGb
GC content	45.62%
Information content (bits; total / per base)	10.954 / 0.685
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9978

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)	0.655	0.713	0.469	0.546	0.541	0.605	1.224	1.477	32.529	92.194

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.995	0.993	0.979	0.972	0.918	0.91
Overall, 3 experiments	best	0.997	0.996	0.982	0.977	0.938	0.924
Methyl HT-SELEX, 1 experiments	median	0.997	0.996	0.982	0.977	0.918	0.91
Methyl HT-SELEX, 1 experiments	best	0.997	0.996	0.982	0.977	0.918	0.91
Non-Methyl HT-SELEX, 2 experiments	median	0.744	0.745	0.735	0.734	0.714	0.71
Non-Methyl HT-SELEX, 2 experiments	best	0.995	0.993	0.979	0.972	0.938	0.924

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.825	1.693	0.104	0.071

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.728	0.33	0.525	0.322
batch 2	0.697	0.225	0.56	0.499

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.H12INVITRO.1.SM.B.pcm
PWM	MEF2B.H12INVITRO.1.SM.B.pwm
PFM	MEF2B.H12INVITRO.1.SM.B.pfm
Alignment	MEF2B.H12INVITRO.1.SM.B.words.tsv
Threshold to P-value map	MEF2B.H12INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	MEF2B.H12INVITRO.1.SM.B_jaspar_format.txt
MEME format	MEF2B.H12INVITRO.1.SM.B_meme_format.meme
Transfac format	MEF2B.H12INVITRO.1.SM.B_transfac_format.txt
Homer format	MEF2B.H12INVITRO.1.SM.B_homer_format_0.001.txt MEF2B.H12INVITRO.1.SM.B_homer_format_0.0005.txt MEF2B.H12INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2504.0	2869.0	2690.0	1915.0
02	1678.25	2810.25	1197.25	4292.25
03	916.0	1639.0	6624.0	799.0
04	1587.0	1077.0	1856.0	5458.0
05	1085.0	552.0	658.0	7683.0
06	5104.0	996.0	1907.0	1971.0
07	25.0	9947.0	6.0	0.0
08	1.0	9688.0	27.0	262.0
09	6068.0	1541.0	736.0	1633.0
10	5070.0	297.0	772.0	3839.0
11	8746.0	39.0	44.0	1149.0
12	2187.0	240.0	63.0	7488.0
13	2902.0	2228.0	1478.0	3370.0
14	1157.0	2330.0	3245.0	3246.0
15	924.5	295.5	8472.5	285.5
16	1353.5	1375.5	5126.5	2122.5

PFM

	A	C	G	T
01	0.251	0.288	0.27	0.192
02	0.168	0.282	0.12	0.43
03	0.092	0.164	0.664	0.08
04	0.159	0.108	0.186	0.547
05	0.109	0.055	0.066	0.77
06	0.512	0.1	0.191	0.198
07	0.003	0.997	0.001	0.0
08	0.0	0.971	0.003	0.026
09	0.608	0.154	0.074	0.164
10	0.508	0.03	0.077	0.385
11	0.877	0.004	0.004	0.115
12	0.219	0.024	0.006	0.75
13	0.291	0.223	0.148	0.338
14	0.116	0.234	0.325	0.325
15	0.093	0.03	0.849	0.029
16	0.136	0.138	0.514	0.213

PWM

	A	C	G	T
01	0.004	0.14	0.075	-0.264
02	-0.396	0.119	-0.733	0.542
03	-1.0	-0.42	0.976	-1.137
04	-0.452	-0.839	-0.295	0.782
05	-0.831	-1.505	-1.33	1.124
06	0.715	-0.917	-0.268	-0.235
07	-4.516	1.382	-5.706	-6.989
08	-6.628	1.356	-4.445	-2.246
09	0.888	-0.481	-1.218	-0.423
10	0.709	-2.121	-1.171	0.431
11	1.254	-4.102	-3.988	-0.774
12	-0.131	-2.333	-3.644	1.099
13	0.151	-0.113	-0.523	0.301
14	-0.767	-0.068	0.263	0.263
15	-0.991	-2.126	1.222	-2.16
16	-0.611	-0.595	0.72	-0.161

Standard thresholds

P-value	Threshold
0.001	4.53546
0.0005	5.45826
0.0001	7.28616