MYOG.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYOG.H12INVITRO.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	15
Consensus	ndhRACAGCTGTTvn
GC content	49.59%
Information content (bits; total / per base)	18.457 / 1.23
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9968

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)	0.875	0.969	0.833	0.923	0.804	0.921	2.986	3.528	198.398	254.268
Mouse	7 (45)	0.935	0.96	0.833	0.891	0.871	0.908	2.825	3.231	202.377	318.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	1.0	1.0	1.0	1.0	0.97	0.972
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	0.969	0.972
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.993	0.992
Non-Methyl HT-SELEX, 2 experiments	median	1.0	0.999	0.998	0.998	0.973	0.972
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	0.901	0.619	0.887	0.581
batch 2	0.623	0.255	0.517	0.237

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

PCM

	A	C	G	T
01	2192.5	2898.5	2919.5	1957.5
02	2878.0	1182.0	4675.0	1233.0
03	1276.0	4393.0	1090.0	3209.0
04	6175.0	179.0	3588.0	26.0
05	9402.0	66.0	284.0	216.0
06	0.0	9967.0	0.0	1.0
07	9967.0	0.0	0.0	1.0
08	209.0	3.0	9755.0	1.0
09	1.0	9775.0	1.0	191.0
10	0.0	0.0	0.0	9968.0
11	0.0	0.0	9968.0	0.0
12	3.0	80.0	22.0	9863.0
13	50.0	516.0	122.0	9280.0
14	1799.25	5194.25	2012.25	962.25
15	2153.5	2783.5	2669.5	2361.5

PFM

	A	C	G	T
01	0.22	0.291	0.293	0.196
02	0.289	0.119	0.469	0.124
03	0.128	0.441	0.109	0.322
04	0.619	0.018	0.36	0.003
05	0.943	0.007	0.028	0.022
06	0.0	1.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.021	0.0	0.979	0.0
09	0.0	0.981	0.0	0.019
10	0.0	0.0	0.0	1.0
11	0.0	0.0	1.0	0.0
12	0.0	0.008	0.002	0.989
13	0.005	0.052	0.012	0.931
14	0.181	0.521	0.202	0.097
15	0.216	0.279	0.268	0.237

PWM

	A	C	G	T
01	-0.128	0.151	0.158	-0.241
02	0.144	-0.745	0.629	-0.703
03	-0.668	0.567	-0.826	0.253
04	0.907	-2.622	0.364	-4.479
05	1.327	-3.598	-2.165	-2.436
06	-6.988	1.386	-6.988	-6.627
07	1.386	-6.988	-6.988	-6.627
08	-2.468	-6.154	1.364	-6.627
09	-6.627	1.366	-6.627	-2.558
10	-6.988	-6.988	-6.988	1.386
11	-6.988	-6.988	1.386	-6.988
12	-6.154	-3.411	-4.631	1.375
13	-3.865	-1.571	-2.999	1.314
14	-0.325	0.734	-0.214	-0.95
15	-0.146	0.111	0.069	-0.054

Standard thresholds

P-value	Threshold
0.001	-2.85159
0.0005	-0.70214
0.0001	3.53906