NGN2.H12INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NGN2.H12INVITRO.1.SM.B
Gene (human)	NEUROG2 (GeneCards)
Gene synonyms (human)	ATOH4, BHLHA8, NGN2
Gene (mouse)	Neurog2
Gene synonyms (mouse)	Ath4a, Atoh4, Ngn2
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	14
Consensus	nRACATATGYYvhn
GC content	37.0%
Information content (bits; total / per base)	15.705 / 1.122
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2081

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	12 (84)	0.792	0.847	0.642	0.703	0.69	0.754	1.823	2.231	39.605	72.721
Mouse	5 (31)	0.832	0.872	0.651	0.708	0.727	0.784	1.931	2.227	77.921	130.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.954	0.948	0.783	0.79	0.657	0.68
Overall, 5 experiments	best	0.985	0.979	0.869	0.865	0.722	0.739
Methyl HT-SELEX, 1 experiments	median	0.847	0.843	0.693	0.701	0.608	0.623
Methyl HT-SELEX, 1 experiments	best	0.847	0.843	0.693	0.701	0.608	0.623
Non-Methyl HT-SELEX, 4 experiments	median	0.959	0.953	0.789	0.796	0.659	0.683
Non-Methyl HT-SELEX, 4 experiments	best	0.985	0.979	0.869	0.865	0.722	0.739

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	Tal-related {1.2.3} (TFClass)
TF subfamily	Neurogenin-ATO {1.2.3.4} (TFClass)
TFClass ID	TFClass: 1.2.3.4.6
HGNC	HGNC:13805
MGI	MGI:109619
EntrezGene (human)	GeneID:63973 (SSTAR profile)
EntrezGene (mouse)	GeneID:11924 (SSTAR profile)
UniProt ID (human)	NGN2_HUMAN
UniProt ID (mouse)	NGN2_MOUSE
UniProt AC (human)	Q9H2A3 (TFClass)
UniProt AC (mouse)	P70447 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	12 human, 5 mouse
HT-SELEX	4
Methyl-HT-SELEX	1

PCM	NGN2.H12INVITRO.1.SM.B.pcm
PWM	NGN2.H12INVITRO.1.SM.B.pwm
PFM	NGN2.H12INVITRO.1.SM.B.pfm
Alignment	NGN2.H12INVITRO.1.SM.B.words.tsv
Threshold to P-value map	NGN2.H12INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	NGN2.H12INVITRO.1.SM.B_jaspar_format.txt
MEME format	NGN2.H12INVITRO.1.SM.B_meme_format.meme
Transfac format	NGN2.H12INVITRO.1.SM.B_transfac_format.txt
Homer format	NGN2.H12INVITRO.1.SM.B_homer_format_0.001.txt NGN2.H12INVITRO.1.SM.B_homer_format_0.0005.txt NGN2.H12INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	511.5	452.5	590.5	526.5
02	1499.25	206.25	290.25	85.25
03	1641.0	149.0	290.0	1.0
04	0.0	2081.0	0.0	0.0
05	2081.0	0.0	0.0	0.0
06	0.0	0.0	0.0	2081.0
07	2080.0	1.0	0.0	0.0
08	0.0	0.0	0.0	2081.0
09	0.0	0.0	2081.0	0.0
10	34.0	350.0	236.0	1461.0
11	57.0	1271.0	54.0	699.0
12	1067.0	407.0	416.0	191.0
13	485.5	708.5	212.5	674.5
14	486.5	526.5	457.5	610.5

PFM

	A	C	G	T
01	0.246	0.217	0.284	0.253
02	0.72	0.099	0.139	0.041
03	0.789	0.072	0.139	0.0
04	0.0	1.0	0.0	0.0
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.0	1.0	0.0
10	0.016	0.168	0.113	0.702
11	0.027	0.611	0.026	0.336
12	0.513	0.196	0.2	0.092
13	0.233	0.34	0.102	0.324
14	0.234	0.253	0.22	0.293

PWM

	A	C	G	T
01	-0.017	-0.139	0.126	0.012
02	1.056	-0.92	-0.581	-1.79
03	1.146	-1.241	-0.582	-5.19
04	-5.611	1.384	-5.611	-5.611
05	1.384	-5.611	-5.611	-5.611
06	-5.611	-5.611	-5.611	1.384
07	1.383	-5.19	-5.611	-5.611
08	-5.611	-5.611	-5.611	1.384
09	-5.611	-5.611	1.384	-5.611
10	-2.677	-0.395	-0.786	1.03
11	-2.182	0.891	-2.234	0.294
12	0.716	-0.244	-0.223	-0.996
13	-0.069	0.308	-0.89	0.259
14	-0.067	0.012	-0.128	0.159

Standard thresholds

P-value	Threshold
0.001	0.609215
0.0005	2.12432
0.0001	5.64366