MYCN.H13RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYCN.H13RSNP.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	12
Consensus	hbSCRCGTGbbY
GC content	68.59%
Information content (bits; total / per base)	11.192 / 0.933
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1000
Previous names	MYCN.H12RSNP.0.PS.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	23 (148)	0.842	0.948	0.745	0.89	0.775	0.913	2.551	3.573	136.565	418.215
Mouse	1 (7)	0.941	0.947	0.864	0.889	0.838	0.873	2.829	3.099	209.469	223.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.683	0.642	0.621	0.595	0.58	0.566
Overall, 2 experiments	best	0.733	0.697	0.644	0.625	0.592	0.583
Methyl HT-SELEX, 1 experiments	median	0.633	0.586	0.599	0.566	0.569	0.549
Methyl HT-SELEX, 1 experiments	best	0.633	0.586	0.599	0.566	0.569	0.549
Non-Methyl HT-SELEX, 1 experiments	median	0.733	0.697	0.644	0.625	0.592	0.583
Non-Methyl HT-SELEX, 1 experiments	best	0.733	0.697	0.644	0.625	0.592	0.583

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	16.309	15.643	0.396	0.199

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

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

PCM

	A	C	G	T
01	195.0	462.0	130.0	213.0
02	135.0	155.0	483.0	227.0
03	53.0	725.0	120.0	102.0
04	9.0	986.0	2.0	3.0
05	763.0	6.0	126.0	105.0
06	4.0	912.0	5.0	79.0
07	47.0	28.0	918.0	7.0
08	14.0	72.0	1.0	913.0
09	2.0	2.0	964.0	32.0
10	107.0	311.0	474.0	108.0
11	49.0	322.0	275.0	354.0
12	61.0	630.0	122.0	187.0

PFM

	A	C	G	T
01	0.195	0.462	0.13	0.213
02	0.135	0.155	0.483	0.227
03	0.053	0.725	0.12	0.102
04	0.009	0.986	0.002	0.003
05	0.763	0.006	0.126	0.105
06	0.004	0.912	0.005	0.079
07	0.047	0.028	0.918	0.007
08	0.014	0.072	0.001	0.913
09	0.002	0.002	0.964	0.032
10	0.107	0.311	0.474	0.108
11	0.049	0.322	0.275	0.354
12	0.061	0.63	0.122	0.187

PWM

	A	C	G	T
01	-0.247	0.611	-0.648	-0.159
02	-0.61	-0.474	0.655	-0.096
03	-1.526	1.06	-0.727	-0.887
04	-3.156	1.367	-4.213	-3.975
05	1.111	-3.484	-0.678	-0.858
06	-3.783	1.289	-3.622	-1.137
07	-1.642	-2.136	1.296	-3.362
08	-2.773	-1.228	-4.525	1.29
09	-4.213	-4.213	1.345	-2.01
10	-0.84	0.217	0.636	-0.83
11	-1.602	0.252	0.095	0.346
12	-1.39	0.92	-0.71	-0.288

Standard thresholds

P-value	Threshold
0.001	4.42856
0.0005	5.39601
0.0001	7.334555