MYCN.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYCN.H12INVIVO.0.PS.A
Gene (human)	MYCN (GeneCards)
Gene synonyms (human)	BHLHE37, NMYC
Gene (mouse)	Mycn
Gene synonyms (mouse)	Nmyc, Nmyc1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	bYCACGTGbbb
GC content	70.46%
Information content (bits; total / per base)	11.508 / 1.046
Data sources	ChIP-Seq + 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	23 (148)	0.842	0.951	0.749	0.894	0.777	0.921	2.584	3.614	146.163	424.824
Mouse	1 (7)	0.949	0.957	0.873	0.898	0.869	0.893	2.967	3.19	215.959	238.432

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.688	0.646	0.623	0.598	0.581	0.567
Overall, 2 experiments	best	0.738	0.703	0.648	0.629	0.593	0.585
Methyl HT-SELEX, 1 experiments	median	0.637	0.589	0.599	0.567	0.569	0.549
Methyl HT-SELEX, 1 experiments	best	0.637	0.589	0.599	0.567	0.569	0.549
Non-Methyl HT-SELEX, 1 experiments	median	0.738	0.703	0.648	0.629	0.593	0.585
Non-Methyl HT-SELEX, 1 experiments	best	0.738	0.703	0.648	0.629	0.593	0.585

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	13.959	15.085	0.38	0.188

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	bHLH-ZIP {1.2.6} (TFClass)
TF subfamily	MYC {1.2.6.5} (TFClass)
TFClass ID	TFClass: 1.2.6.5.2
HGNC	HGNC:7559
MGI	MGI:97357
EntrezGene (human)	GeneID:4613 (SSTAR profile)
EntrezGene (mouse)	GeneID:18109 (SSTAR profile)
UniProt ID (human)	MYCN_HUMAN
UniProt ID (mouse)	MYCN_MOUSE
UniProt AC (human)	P04198 (TFClass)
UniProt AC (mouse)	P03966 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	23 human, 1 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

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

PCM

	A	C	G	T
01	102.0	175.0	582.0	141.0
02	76.0	772.0	64.0	88.0
03	14.0	985.0	0.0	1.0
04	789.0	2.0	103.0	106.0
05	1.0	885.0	4.0	110.0
06	26.0	18.0	954.0	2.0
07	20.0	74.0	1.0	905.0
08	1.0	4.0	986.0	9.0
09	48.0	446.0	383.0	123.0
10	105.0	176.0	343.0	376.0
11	57.0	525.0	269.0	149.0

PFM

	A	C	G	T
01	0.102	0.175	0.582	0.141
02	0.076	0.772	0.064	0.088
03	0.014	0.985	0.0	0.001
04	0.789	0.002	0.103	0.106
05	0.001	0.885	0.004	0.11
06	0.026	0.018	0.954	0.002
07	0.02	0.074	0.001	0.905
08	0.001	0.004	0.986	0.009
09	0.048	0.446	0.383	0.123
10	0.105	0.176	0.343	0.376
11	0.057	0.525	0.269	0.149

PWM

	A	C	G	T
01	-0.887	-0.354	0.841	-0.567
02	-1.175	1.123	-1.343	-1.032
03	-2.773	1.366	-4.982	-4.525
04	1.145	-4.213	-0.877	-0.849
05	-4.525	1.259	-3.783	-0.812
06	-2.206	-2.546	1.334	-4.213
07	-2.45	-1.201	-4.525	1.281
08	-4.525	-3.783	1.367	-3.156
09	-1.622	0.576	0.424	-0.702
10	-0.858	-0.348	0.314	0.406
11	-1.455	0.738	0.073	-0.513

Standard thresholds

P-value	Threshold
0.001	4.31145
0.0005	5.34275
0.0001	7.338975