MYOG.H13RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYOG.H13RSNP.0.PSM.A
Gene (human)	MYOG (GeneCards)
Gene synonyms (human)	BHLHC3, MYF4
Gene (mouse)	Myog
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	16
Consensus	nvbAACAGCTGTTMvn
GC content	49.11%
Information content (bits; total / per base)	20.058 / 1.254
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9835
Previous names	MYOG.H12RSNP.0.PSM.A

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	3 (17)	0.884	0.959	0.827	0.912	0.772	0.888	2.759	3.239	176.194	219.824
Mouse	7 (45)	0.919	0.955	0.823	0.88	0.82	0.873	2.538	2.993	165.409	266.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	1.0	1.0	1.0	1.0	0.967	0.97
Overall, 4 experiments	best	1.0	1.0	1.0	1.0	0.999	0.999
Methyl HT-SELEX, 2 experiments	median	1.0	1.0	1.0	1.0	0.967	0.97
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.991	0.99
Non-Methyl HT-SELEX, 2 experiments	median	1.0	0.999	0.997	0.996	0.958	0.958
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.999	0.999

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.904	0.681	0.884	0.586
batch 2	0.63	0.269	0.511	0.236

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	MyoD-ASC-related {1.2.2} (TFClass)
TF subfamily	Myogenic TFs {1.2.2.1} (TFClass)
TFClass ID	TFClass: 1.2.2.1.2
HGNC	HGNC:7612
MGI	MGI:97276
EntrezGene (human)	GeneID:4656 (SSTAR profile)
EntrezGene (mouse)	GeneID:17928 (SSTAR profile)
UniProt ID (human)	MYOG_HUMAN
UniProt ID (mouse)	MYOG_MOUSE
UniProt AC (human)	P15173 (TFClass)
UniProt AC (mouse)	P12979 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 7 mouse
HT-SELEX	2
Methyl-HT-SELEX	2
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	MYOG.H13RSNP.0.PSM.A.pcm
PWM	MYOG.H13RSNP.0.PSM.A.pwm
PFM	MYOG.H13RSNP.0.PSM.A.pfm
Threshold to P-value map	MYOG.H13RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	MYOG.H13RSNP.0.PSM.A_jaspar_format.txt
MEME format	MYOG.H13RSNP.0.PSM.A_meme_format.meme
Transfac format	MYOG.H13RSNP.0.PSM.A_transfac_format.txt
Homer format	MYOG.H13RSNP.0.PSM.A_homer_format_0.001.txt MYOG.H13RSNP.0.PSM.A_homer_format_0.0005.txt MYOG.H13RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2803.5	2945.5	2342.5	1743.5
02	4541.25	1701.25	2408.25	1184.25
03	1122.0	4860.0	1291.0	2562.0
04	8407.0	20.0	1408.0	0.0
05	9776.0	2.0	43.0	14.0
06	0.0	9835.0	0.0	0.0
07	9835.0	0.0	0.0	0.0
08	48.0	0.0	9787.0	0.0
09	0.0	9778.0	0.0	57.0
10	0.0	0.0	0.0	9835.0
11	0.0	0.0	9835.0	0.0
12	9.0	11.0	1.0	9814.0
13	1.0	818.0	3.0	9013.0
14	1889.0	6151.0	1024.0	771.0
15	1661.0	5137.0	1901.0	1136.0
16	1733.0	3643.0	2337.0	2122.0

PFM

	A	C	G	T
01	0.285	0.299	0.238	0.177
02	0.462	0.173	0.245	0.12
03	0.114	0.494	0.131	0.26
04	0.855	0.002	0.143	0.0
05	0.994	0.0	0.004	0.001
06	0.0	1.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.005	0.0	0.995	0.0
09	0.0	0.994	0.0	0.006
10	0.0	0.0	0.0	1.0
11	0.0	0.0	1.0	0.0
12	0.001	0.001	0.0	0.998
13	0.0	0.083	0.0	0.916
14	0.192	0.625	0.104	0.078
15	0.169	0.522	0.193	0.116
16	0.176	0.37	0.238	0.216

PWM

	A	C	G	T
01	0.131	0.18	-0.048	-0.343
02	0.613	-0.368	-0.021	-0.73
03	-0.783	0.681	-0.643	0.041
04	1.229	-4.704	-0.557	-6.976
05	1.38	-6.35	-3.995	-5.017
06	-6.976	1.386	-6.976	-6.976
07	1.386	-6.976	-6.976	-6.976
08	-3.89	-6.976	1.381	-6.976
09	-6.976	1.38	-6.976	-3.726
10	-6.976	-6.976	-6.976	1.386
11	-6.976	-6.976	1.386	-6.976
12	-5.384	-5.221	-6.615	1.383
13	-6.615	-1.099	-6.141	1.298
14	-0.263	0.916	-0.875	-1.158
15	-0.392	0.736	-0.257	-0.771
16	-0.349	0.393	-0.051	-0.147

Standard thresholds

P-value	Threshold
0.001	-5.89104
0.0005	-3.58189
0.0001	1.06906