MEF2D.H12INVITRO.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEF2D.H12INVITRO.1.M.C
Gene (human)	MEF2D (GeneCards)
Gene synonyms (human)
Gene (mouse)	Mef2d
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	16
Consensus	nMYvdWTTWGGhWvvn
GC content	42.47%
Information content (bits; total / per base)	10.548 / 0.659
Data sources	Methyl-HT-SELEX
Aligned words	6470

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	1 (7)	0.577	0.588	0.399	0.406	0.514	0.533	1.091	1.155	10.215	12.31
Mouse	8 (46)	0.603	0.637	0.409	0.455	0.519	0.578	1.1	1.311	30.452	45.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.686	0.615	0.636	0.592	0.574	0.561
Overall, 3 experiments	best	0.949	0.93	0.842	0.824	0.699	0.711
Methyl HT-SELEX, 1 experiments	median	0.949	0.93	0.842	0.824	0.699	0.711
Methyl HT-SELEX, 1 experiments	best	0.949	0.93	0.842	0.824	0.699	0.711
Non-Methyl HT-SELEX, 2 experiments	median	0.627	0.579	0.589	0.56	0.547	0.54
Non-Methyl HT-SELEX, 2 experiments	best	0.686	0.615	0.636	0.592	0.574	0.561

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: 5.1.1.1.4
HGNC	HGNC:6997
MGI	MGI:99533
EntrezGene (human)	GeneID:4209 (SSTAR profile)
EntrezGene (mouse)	GeneID:17261 (SSTAR profile)
UniProt ID (human)	MEF2D_HUMAN
UniProt ID (mouse)	MEF2D_MOUSE
UniProt AC (human)	Q14814 (TFClass)
UniProt AC (mouse)	Q63943 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 8 mouse
HT-SELEX	2
Methyl-HT-SELEX	1

PCM	MEF2D.H12INVITRO.1.M.C.pcm
PWM	MEF2D.H12INVITRO.1.M.C.pwm
PFM	MEF2D.H12INVITRO.1.M.C.pfm
Alignment	MEF2D.H12INVITRO.1.M.C.words.tsv
Threshold to P-value map	MEF2D.H12INVITRO.1.M.C.thr
Motif in other formats
JASPAR format	MEF2D.H12INVITRO.1.M.C_jaspar_format.txt
MEME format	MEF2D.H12INVITRO.1.M.C_meme_format.meme
Transfac format	MEF2D.H12INVITRO.1.M.C_transfac_format.txt
Homer format	MEF2D.H12INVITRO.1.M.C_homer_format_0.001.txt MEF2D.H12INVITRO.1.M.C_homer_format_0.0005.txt MEF2D.H12INVITRO.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1190.0	1215.0	1935.0	2130.0
02	1328.25	4112.25	510.25	519.25
03	223.0	4344.0	269.0	1634.0
04	2562.0	1758.0	1150.0	1000.0
05	2787.0	1109.0	1262.0	1312.0
06	4540.0	94.0	386.0	1450.0
07	709.0	28.0	67.0	5666.0
08	1989.0	5.0	73.0	4403.0
09	3122.0	20.0	0.0	3328.0
10	354.0	5.0	6111.0	0.0
11	1.0	1.0	6468.0	0.0
12	3446.0	894.0	623.0	1507.0
13	4295.0	435.0	640.0	1100.0
14	2508.0	2028.0	1000.0	934.0
15	1218.25	2368.25	1899.25	984.25
16	1747.25	1220.25	1939.25	1563.25

PFM

	A	C	G	T
01	0.184	0.188	0.299	0.329
02	0.205	0.636	0.079	0.08
03	0.034	0.671	0.042	0.253
04	0.396	0.272	0.178	0.155
05	0.431	0.171	0.195	0.203
06	0.702	0.015	0.06	0.224
07	0.11	0.004	0.01	0.876
08	0.307	0.001	0.011	0.681
09	0.483	0.003	0.0	0.514
10	0.055	0.001	0.945	0.0
11	0.0	0.0	1.0	0.0
12	0.533	0.138	0.096	0.233
13	0.664	0.067	0.099	0.17
14	0.388	0.313	0.155	0.144
15	0.188	0.366	0.294	0.152
16	0.27	0.189	0.3	0.242

PWM

	A	C	G	T
01	-0.306	-0.286	0.179	0.275
02	-0.197	0.932	-1.151	-1.133
03	-1.973	0.987	-1.787	0.01
04	0.459	0.083	-0.341	-0.48
05	0.544	-0.377	-0.248	-0.209
06	1.031	-2.824	-1.428	-0.109
07	-0.823	-3.982	-3.153	1.253
08	0.206	-5.417	-3.07	1.001
09	0.657	-4.29	-6.604	0.721
10	-1.515	-5.417	1.328	-6.604
11	-6.229	-6.229	1.385	-6.604
12	0.756	-0.592	-0.952	-0.071
13	0.976	-1.31	-0.925	-0.385
14	0.438	0.226	-0.48	-0.548
15	-0.283	0.381	0.16	-0.496
16	0.077	-0.281	0.181	-0.034

Standard thresholds

P-value	Threshold
0.001	4.70911
0.0005	5.64171
0.0001	7.39816