MYCN.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYCN.H12INVITRO.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	17
Consensus	nhnhhhhnCRCGTRhhn
GC content	53.37%
Information content (bits; total / per base)	8.684 / 0.511
Data sources	ChIP-Seq + HT-SELEX
Aligned words	2101

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)	0.75	0.863	0.584	0.728	0.677	0.801	1.768	2.385	20.869	133.699
Mouse	1 (7)	0.882	0.893	0.772	0.797	0.772	0.794	2.31	2.37	103.538	116.357

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.765	0.694	0.721	0.661	0.67	0.627
Overall, 2 experiments	best	0.815	0.744	0.757	0.698	0.697	0.655
Methyl HT-SELEX, 1 experiments	median	0.715	0.643	0.684	0.624	0.643	0.6
Methyl HT-SELEX, 1 experiments	best	0.715	0.643	0.684	0.624	0.643	0.6
Non-Methyl HT-SELEX, 1 experiments	median	0.815	0.744	0.757	0.698	0.697	0.655
Non-Methyl HT-SELEX, 1 experiments	best	0.815	0.744	0.757	0.698	0.697	0.655

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.819	6.014	0.292	0.143

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

PCM

	A	C	G	T
01	415.75	746.75	410.75	527.75
02	391.5	761.5	295.5	652.5
03	391.0	560.0	524.0	626.0
04	347.0	749.0	232.0	773.0
05	357.0	980.0	196.0	568.0
06	468.0	481.0	182.0	970.0
07	406.0	739.0	117.0	839.0
08	505.0	739.0	432.0	425.0
09	9.0	1756.0	1.0	335.0
10	1176.0	39.0	841.0	45.0
11	0.0	2100.0	0.0	1.0
12	115.0	16.0	1742.0	228.0
13	1.0	200.0	0.0	1900.0
14	568.0	100.0	1308.0	125.0
15	734.75	673.75	311.75	380.75
16	629.75	707.75	185.75	577.75
17	661.25	567.25	367.25	505.25

PFM

	A	C	G	T
01	0.198	0.355	0.196	0.251
02	0.186	0.362	0.141	0.311
03	0.186	0.267	0.249	0.298
04	0.165	0.356	0.11	0.368
05	0.17	0.466	0.093	0.27
06	0.223	0.229	0.087	0.462
07	0.193	0.352	0.056	0.399
08	0.24	0.352	0.206	0.202
09	0.004	0.836	0.0	0.159
10	0.56	0.019	0.4	0.021
11	0.0	1.0	0.0	0.0
12	0.055	0.008	0.829	0.109
13	0.0	0.095	0.0	0.904
14	0.27	0.048	0.623	0.059
15	0.35	0.321	0.148	0.181
16	0.3	0.337	0.088	0.275
17	0.315	0.27	0.175	0.24

PWM

	A	C	G	T
01	-0.233	0.351	-0.245	0.005
02	-0.293	0.37	-0.572	0.216
03	-0.294	0.064	-0.002	0.175
04	-0.413	0.354	-0.813	0.385
05	-0.384	0.622	-0.98	0.078
06	-0.115	-0.088	-1.053	0.612
07	-0.256	0.34	-1.489	0.467
08	-0.039	0.34	-0.195	-0.211
09	-3.878	1.204	-5.198	-0.448
10	0.804	-2.556	0.469	-2.419
11	-5.619	1.383	-5.619	-5.198
12	-1.506	-3.382	1.196	-0.83
13	-5.198	-0.96	-5.619	1.283
14	0.078	-1.643	0.91	-1.424
15	0.335	0.248	-0.519	-0.32
16	0.181	0.297	-1.033	0.095
17	0.23	0.077	-0.356	-0.039

Standard thresholds

P-value	Threshold
0.001	5.14921
0.0005	5.87391
0.0001	7.24276