MYCN.H12RSNP.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYCN.H12RSNP.1.M.C
Gene (human)	MYCN (GeneCards)
Gene synonyms (human)	BHLHE37, NMYC
Gene (mouse)	Mycn
Gene synonyms (mouse)	Nmyc, Nmyc1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	12
Consensus	nhhWCGCGCdYn
GC content	62.81%
Information content (bits; total / per base)	10.73 / 0.894
Data sources	Methyl-HT-SELEX
Aligned words	396

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)	0.662	0.734	0.475	0.544	0.518	0.652	1.158	1.506	7.517	18.161
Mouse	1 (7)	0.586	0.632	0.445	0.482	0.293	0.394	0.635	0.907	10.432	13.495

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.76	0.697	0.693	0.648	0.632	0.606
Overall, 2 experiments	best	0.78	0.714	0.706	0.661	0.641	0.616
Methyl HT-SELEX, 1 experiments	median	0.741	0.679	0.679	0.635	0.622	0.597
Methyl HT-SELEX, 1 experiments	best	0.741	0.679	0.679	0.635	0.622	0.597
Non-Methyl HT-SELEX, 1 experiments	median	0.78	0.714	0.706	0.661	0.641	0.616
Non-Methyl HT-SELEX, 1 experiments	best	0.78	0.714	0.706	0.661	0.641	0.616

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.55	0.984	0.14	0.026

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.H12RSNP.1.M.C.pcm
PWM	MYCN.H12RSNP.1.M.C.pwm
PFM	MYCN.H12RSNP.1.M.C.pfm
Alignment	MYCN.H12RSNP.1.M.C.words.tsv
Threshold to P-value map	MYCN.H12RSNP.1.M.C.thr
Motif in other formats
JASPAR format	MYCN.H12RSNP.1.M.C_jaspar_format.txt
MEME format	MYCN.H12RSNP.1.M.C_meme_format.meme
Transfac format	MYCN.H12RSNP.1.M.C_transfac_format.txt
Homer format	MYCN.H12RSNP.1.M.C_homer_format_0.001.txt MYCN.H12RSNP.1.M.C_homer_format_0.0005.txt MYCN.H12RSNP.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	97.0	107.0	86.0	106.0
02	51.5	112.5	50.5	181.5
03	88.5	111.5	12.5	183.5
04	235.0	37.0	0.0	124.0
05	0.0	387.0	0.0	9.0
06	0.0	9.0	387.0	0.0
07	0.0	396.0	0.0	0.0
08	0.0	0.0	394.0	2.0
09	0.0	241.0	0.0	155.0
10	80.75	40.75	213.75	60.75
11	45.25	173.25	9.25	168.25
12	85.25	80.25	136.25	94.25

PFM

	A	C	G	T
01	0.245	0.27	0.217	0.268
02	0.13	0.284	0.128	0.458
03	0.223	0.282	0.032	0.463
04	0.593	0.093	0.0	0.313
05	0.0	0.977	0.0	0.023
06	0.0	0.023	0.977	0.0
07	0.0	1.0	0.0	0.0
08	0.0	0.0	0.995	0.005
09	0.0	0.609	0.0	0.391
10	0.204	0.103	0.54	0.153
11	0.114	0.438	0.023	0.425
12	0.215	0.203	0.344	0.238

PWM

	A	C	G	T
01	-0.02	0.077	-0.139	0.067
02	-0.64	0.126	-0.659	0.599
03	-0.11	0.117	-1.971	0.61
04	0.856	-0.96	-4.208	0.222
05	-4.208	1.352	-4.208	-2.259
06	-4.208	-2.259	1.352	-4.208
07	-4.208	1.375	-4.208	-4.208
08	-4.208	-4.208	1.37	-3.359
09	-4.208	0.881	-4.208	0.443
10	-0.2	-0.867	0.762	-0.479
11	-0.765	0.553	-2.236	0.524
12	-0.147	-0.207	0.315	-0.048

Standard thresholds

P-value	Threshold
0.001	4.52411
0.0005	5.878085
0.0001	7.68435