MYCN.H12INVIVO.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYCN.H12INVIVO.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	11
Consensus	nhWCGCGCdhn
GC content	62.61%
Information content (bits; total / per base)	10.426 / 0.948
Data sources	Methyl-HT-SELEX
Aligned words	714

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)	0.664	0.733	0.477	0.552	0.513	0.639	1.099	1.413	7.927	18.796
Mouse	1 (7)	0.579	0.625	0.442	0.478	0.276	0.38	0.597	0.87	6.42	9.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.761	0.701	0.683	0.644	0.626	0.603
Overall, 2 experiments	best	0.782	0.72	0.696	0.657	0.635	0.612
Methyl HT-SELEX, 1 experiments	median	0.74	0.681	0.671	0.63	0.617	0.594
Methyl HT-SELEX, 1 experiments	best	0.74	0.681	0.671	0.63	0.617	0.594
Non-Methyl HT-SELEX, 1 experiments	median	0.782	0.72	0.696	0.657	0.635	0.612
Non-Methyl HT-SELEX, 1 experiments	best	0.782	0.72	0.696	0.657	0.635	0.612

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.418	0.762	0.141	0.019

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.1.M.C.pcm
PWM	MYCN.H12INVIVO.1.M.C.pwm
PFM	MYCN.H12INVIVO.1.M.C.pfm
Alignment	MYCN.H12INVIVO.1.M.C.words.tsv
Threshold to P-value map	MYCN.H12INVIVO.1.M.C.thr
Motif in other formats
JASPAR format	MYCN.H12INVIVO.1.M.C_jaspar_format.txt
MEME format	MYCN.H12INVIVO.1.M.C_meme_format.meme
Transfac format	MYCN.H12INVIVO.1.M.C_transfac_format.txt
Homer format	MYCN.H12INVIVO.1.M.C_homer_format_0.001.txt MYCN.H12INVIVO.1.M.C_homer_format_0.0005.txt MYCN.H12INVIVO.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	131.75	184.75	128.75	268.75
02	148.25	184.25	20.25	361.25
03	447.5	37.5	0.5	228.5
04	0.0	711.0	0.0	3.0
05	0.0	15.0	699.0	0.0
06	0.0	714.0	0.0	0.0
07	0.0	0.0	707.0	7.0
08	0.0	396.0	0.0	318.0
09	180.25	97.25	332.25	104.25
10	109.5	271.5	65.5	267.5
11	154.25	151.25	201.25	207.25

PFM

	A	C	G	T
01	0.185	0.259	0.18	0.376
02	0.208	0.258	0.028	0.506
03	0.627	0.053	0.001	0.32
04	0.0	0.996	0.0	0.004
05	0.0	0.021	0.979	0.0
06	0.0	1.0	0.0	0.0
07	0.0	0.0	0.99	0.01
08	0.0	0.555	0.0	0.445
09	0.252	0.136	0.465	0.146
10	0.153	0.38	0.092	0.375
11	0.216	0.212	0.282	0.29

PWM

	A	C	G	T
01	-0.3	0.034	-0.323	0.406
02	-0.184	0.031	-2.108	0.7
03	0.914	-1.527	-4.432	0.245
04	-4.697	1.375	-4.697	-3.658
05	-4.697	-2.382	1.358	-4.697
06	-4.697	1.379	-4.697	-4.697
07	-4.697	-4.697	1.37	-3.037
08	-4.697	0.792	-4.697	0.573
09	0.01	-0.6	0.617	-0.531
10	-0.483	0.416	-0.987	0.401
11	-0.145	-0.164	0.119	0.148

Standard thresholds

P-value	Threshold
0.001	4.62468
0.0005	6.148275
0.0001	7.676645