MEF2D.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MEF2D.H12INVITRO.0.PS.A
Gene (human)	MEF2D (GeneCards)
Gene synonyms (human)
Gene (mouse)	Mef2d
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	19
Consensus	nnnnnddKCTATTWATAGh
GC content	33.59%
Information content (bits; total / per base)	16.338 / 0.86
Data sources	ChIP-Seq + HT-SELEX
Aligned words	9980

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)	0.672	0.704	0.628	0.655	0.711	0.741	3.132	3.296	94.721	130.678
Mouse	8 (46)	0.872	0.926	0.82	0.885	0.884	0.93	4.199	5.098	202.833	524.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.737	0.743	0.639	0.625	0.573	0.577
Overall, 3 experiments	best	0.98	0.98	0.725	0.77	0.583	0.646
Methyl HT-SELEX, 1 experiments	median	0.737	0.703	0.639	0.625	0.573	0.577
Methyl HT-SELEX, 1 experiments	best	0.737	0.703	0.639	0.625	0.573	0.577
Non-Methyl HT-SELEX, 2 experiments	median	0.851	0.861	0.655	0.694	0.557	0.604
Non-Methyl HT-SELEX, 2 experiments	best	0.98	0.98	0.725	0.77	0.583	0.646

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.0.PS.A.pcm
PWM	MEF2D.H12INVITRO.0.PS.A.pwm
PFM	MEF2D.H12INVITRO.0.PS.A.pfm
Alignment	MEF2D.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	MEF2D.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	MEF2D.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	MEF2D.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	MEF2D.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	MEF2D.H12INVITRO.0.PS.A_homer_format_0.001.txt MEF2D.H12INVITRO.0.PS.A_homer_format_0.0005.txt MEF2D.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2262.5	2841.5	2418.5	2457.5
02	2211.25	2932.25	2398.25	2438.25
03	2156.0	3037.0	2555.0	2232.0
04	2391.0	2579.0	2655.0	2355.0
05	2561.0	2212.0	2967.0	2240.0
06	2867.0	1436.0	3718.0	1959.0
07	2871.0	911.0	2566.0	3632.0
08	873.0	311.0	4471.0	4325.0
09	52.0	9797.0	25.0	106.0
10	12.0	43.0	11.0	9914.0
11	9929.0	30.0	8.0	13.0
12	1982.0	6.0	5.0	7987.0
13	4172.0	0.0	1.0	5807.0
14	4925.0	3.0	6.0	5046.0
15	7277.0	27.0	19.0	2657.0
16	41.0	37.0	42.0	9860.0
17	9756.0	13.0	191.0	20.0
18	273.75	111.75	9465.75	128.75
19	4046.5	2557.5	1277.5	2098.5

PFM

	A	C	G	T
01	0.227	0.285	0.242	0.246
02	0.222	0.294	0.24	0.244
03	0.216	0.304	0.256	0.224
04	0.24	0.258	0.266	0.236
05	0.257	0.222	0.297	0.224
06	0.287	0.144	0.373	0.196
07	0.288	0.091	0.257	0.364
08	0.087	0.031	0.448	0.433
09	0.005	0.982	0.003	0.011
10	0.001	0.004	0.001	0.993
11	0.995	0.003	0.001	0.001
12	0.199	0.001	0.001	0.8
13	0.418	0.0	0.0	0.582
14	0.493	0.0	0.001	0.506
15	0.729	0.003	0.002	0.266
16	0.004	0.004	0.004	0.988
17	0.978	0.001	0.019	0.002
18	0.027	0.011	0.948	0.013
19	0.405	0.256	0.128	0.21

PWM

	A	C	G	T
01	-0.098	0.13	-0.031	-0.015
02	-0.121	0.161	-0.04	-0.023
03	-0.146	0.196	0.024	-0.111
04	-0.043	0.033	0.062	-0.058
05	0.026	-0.12	0.173	-0.108
06	0.139	-0.552	0.399	-0.242
07	0.14	-1.006	0.028	0.375
08	-1.048	-2.076	0.583	0.55
09	-3.828	1.367	-4.516	-3.138
10	-5.163	-4.01	-5.235	1.379
11	1.38	-4.348	-5.491	-5.095
12	-0.23	-5.706	-5.835	1.163
13	0.514	-6.989	-6.628	0.844
14	0.68	-6.155	-5.706	0.704
15	1.07	-4.445	-4.764	0.063
16	-4.055	-4.152	-4.032	1.374
17	1.363	-5.095	-2.559	-4.718
18	-2.202	-3.086	1.333	-2.947
19	0.483	0.025	-0.669	-0.173

Standard thresholds

P-value	Threshold
0.001	0.35116
0.0005	1.85351
0.0001	5.51271