MYOG.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYOG.H12INVIVO.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	12
Consensus	nvCAGCTGYYvb
GC content	62.24%
Information content (bits; total / per base)	13.122 / 1.093
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1000

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)	0.88	0.979	0.859	0.942	0.839	0.957	3.304	3.841	245.456	310.678
Mouse	7 (45)	0.964	0.98	0.913	0.947	0.943	0.957	3.631	3.783	329.569	431.237

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.994	0.987	0.994	0.988	0.958	0.952
Overall, 4 experiments	best	0.995	0.989	0.996	0.991	0.988	0.983
Methyl HT-SELEX, 2 experiments	median	0.994	0.987	0.994	0.988	0.958	0.952
Methyl HT-SELEX, 2 experiments	best	0.995	0.989	0.995	0.99	0.976	0.969
Non-Methyl HT-SELEX, 2 experiments	median	0.993	0.985	0.988	0.98	0.958	0.95
Non-Methyl HT-SELEX, 2 experiments	best	0.995	0.989	0.996	0.991	0.988	0.983

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.773	0.342	0.778	0.53
batch 2	0.523	0.149	0.199	0.088

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

PCM	MYOG.H12INVIVO.0.PSM.A.pcm
PWM	MYOG.H12INVIVO.0.PSM.A.pwm
PFM	MYOG.H12INVIVO.0.PSM.A.pfm
Alignment	MYOG.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	MYOG.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	MYOG.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	MYOG.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	MYOG.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	MYOG.H12INVIVO.0.PSM.A_homer_format_0.001.txt MYOG.H12INVIVO.0.PSM.A_homer_format_0.0005.txt MYOG.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	202.0	291.0	242.0	265.0
02	134.0	243.0	508.0	115.0
03	1.0	996.0	2.0	1.0
04	995.0	1.0	1.0	3.0
05	7.0	132.0	843.0	18.0
06	3.0	987.0	2.0	8.0
07	0.0	1.0	1.0	998.0
08	2.0	5.0	992.0	1.0
09	2.0	358.0	18.0	622.0
10	0.0	452.0	92.0	456.0
11	166.0	427.0	273.0	134.0
12	109.0	445.0	157.0	289.0

PFM

	A	C	G	T
01	0.202	0.291	0.242	0.265
02	0.134	0.243	0.508	0.115
03	0.001	0.996	0.002	0.001
04	0.995	0.001	0.001	0.003
05	0.007	0.132	0.843	0.018
06	0.003	0.987	0.002	0.008
07	0.0	0.001	0.001	0.998
08	0.002	0.005	0.992	0.001
09	0.002	0.358	0.018	0.622
10	0.0	0.452	0.092	0.456
11	0.166	0.427	0.273	0.134
12	0.109	0.445	0.157	0.289

PWM

	A	C	G	T
01	-0.212	0.151	-0.032	0.058
02	-0.618	-0.028	0.706	-0.769
03	-4.525	1.377	-4.213	-4.525
04	1.376	-4.525	-4.525	-3.975
05	-3.362	-0.633	1.211	-2.546
06	-3.975	1.368	-4.213	-3.253
07	-4.982	-4.525	-4.525	1.379
08	-4.213	-3.622	1.373	-4.525
09	-4.213	0.357	-2.546	0.907
10	-4.982	0.589	-0.988	0.598
11	-0.406	0.532	0.087	-0.618
12	-0.821	0.574	-0.461	0.144

Standard thresholds

P-value	Threshold
0.001	3.177215
0.0005	4.241865
0.0001	7.30327