MYCN.H12INVITRO.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MYCN.H12INVITRO.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	nhhWCGCGYdhn
GC content	60.87%
Information content (bits; total / per base)	9.421 / 0.785
Data sources	Methyl-HT-SELEX
Aligned words	1579

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	0.735	0.48	0.551	0.523	0.642	1.147	1.454	5.62	14.367
Mouse	1 (7)	0.658	0.678	0.482	0.503	0.302	0.401	0.638	0.901	8.086	9.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.763	0.7	0.697	0.651	0.638	0.61
Overall, 2 experiments	best	0.783	0.72	0.712	0.665	0.649	0.621
Methyl HT-SELEX, 1 experiments	median	0.742	0.68	0.683	0.636	0.626	0.6
Methyl HT-SELEX, 1 experiments	best	0.742	0.68	0.683	0.636	0.626	0.6
Non-Methyl HT-SELEX, 1 experiments	median	0.783	0.72	0.712	0.665	0.649	0.621
Non-Methyl HT-SELEX, 1 experiments	best	0.783	0.72	0.712	0.665	0.649	0.621

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.317	0.499	0.115	0.007

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.1.M.C.pcm
PWM	MYCN.H12INVITRO.1.M.C.pwm
PFM	MYCN.H12INVITRO.1.M.C.pfm
Alignment	MYCN.H12INVITRO.1.M.C.words.tsv
Threshold to P-value map	MYCN.H12INVITRO.1.M.C.thr
Motif in other formats
JASPAR format	MYCN.H12INVITRO.1.M.C_jaspar_format.txt
MEME format	MYCN.H12INVITRO.1.M.C_meme_format.meme
Transfac format	MYCN.H12INVITRO.1.M.C_transfac_format.txt
Homer format	MYCN.H12INVITRO.1.M.C_homer_format_0.001.txt MYCN.H12INVITRO.1.M.C_homer_format_0.0005.txt MYCN.H12INVITRO.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	338.25	492.25	325.25	423.25
02	289.5	515.5	217.5	556.5
03	339.0	519.0	36.0	685.0
04	797.0	204.0	1.0	577.0
05	3.0	1461.0	0.0	115.0
06	12.0	107.0	1460.0	0.0
07	0.0	1579.0	0.0	0.0
08	0.0	0.0	1523.0	56.0
09	3.0	831.0	0.0	745.0
10	485.75	179.75	633.75	279.75
11	309.25	600.25	73.25	596.25
12	403.75	395.75	379.75	399.75

PFM

	A	C	G	T
01	0.214	0.312	0.206	0.268
02	0.183	0.326	0.138	0.352
03	0.215	0.329	0.023	0.434
04	0.505	0.129	0.001	0.365
05	0.002	0.925	0.0	0.073
06	0.008	0.068	0.925	0.0
07	0.0	1.0	0.0	0.0
08	0.0	0.0	0.965	0.035
09	0.002	0.526	0.0	0.472
10	0.308	0.114	0.401	0.177
11	0.196	0.38	0.046	0.378
12	0.256	0.251	0.241	0.253

PWM

	A	C	G	T
01	-0.154	0.22	-0.193	0.069
02	-0.308	0.266	-0.592	0.342
03	-0.151	0.273	-2.35	0.549
04	0.7	-0.656	-4.939	0.378
05	-4.406	1.305	-5.373	-1.222
06	-3.355	-1.293	1.305	-5.373
07	-5.373	1.383	-5.373	-5.373
08	-5.373	-5.373	1.347	-1.925
09	-4.406	0.742	-5.373	0.633
10	0.207	-0.781	0.472	-0.342
11	-0.243	0.418	-1.664	0.411
12	0.022	0.003	-0.039	0.013

Standard thresholds

P-value	Threshold
0.001	5.11352
0.0005	6.16706
0.0001	7.53812