NGN2.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NGN2.H12INVITRO.0.P.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	0
Quality	B

Motif length	11
Consensus	nRRCAGMTGGb
GC content	57.08%
Information content (bits; total / per base)	12.398 / 1.127
Data sources	ChIP-Seq
Aligned words	1000

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)	0.943	0.965	0.865	0.906	0.902	0.921	3.024	3.215	184.741	261.081
Mouse	5 (31)	0.956	0.976	0.893	0.943	0.93	0.949	3.615	3.713	247.699	364.222

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.938	0.885	0.779	0.769	0.653	0.668
Overall, 5 experiments	best	0.947	0.905	0.851	0.818	0.706	0.71
Methyl HT-SELEX, 1 experiments	median	0.794	0.724	0.654	0.638	0.575	0.583
Methyl HT-SELEX, 1 experiments	best	0.794	0.724	0.654	0.638	0.575	0.583
Non-Methyl HT-SELEX, 4 experiments	median	0.939	0.891	0.784	0.774	0.655	0.671
Non-Methyl HT-SELEX, 4 experiments	best	0.947	0.905	0.851	0.818	0.706	0.71

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.0.P.B.pcm
PWM	NGN2.H12INVITRO.0.P.B.pwm
PFM	NGN2.H12INVITRO.0.P.B.pfm
Alignment	NGN2.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	NGN2.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	NGN2.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	NGN2.H12INVITRO.0.P.B_meme_format.meme
Transfac format	NGN2.H12INVITRO.0.P.B_transfac_format.txt
Homer format	NGN2.H12INVITRO.0.P.B_homer_format_0.001.txt NGN2.H12INVITRO.0.P.B_homer_format_0.0005.txt NGN2.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	205.0	219.0	310.0	266.0
02	525.0	63.0	388.0	24.0
03	407.0	136.0	457.0	0.0
04	0.0	999.0	0.0	1.0
05	999.0	0.0	0.0	1.0
06	1.0	3.0	913.0	83.0
07	711.0	264.0	20.0	5.0
08	48.0	2.0	0.0	950.0
09	1.0	1.0	975.0	23.0
10	16.0	71.0	793.0	120.0
11	92.0	432.0	233.0	243.0

PFM

	A	C	G	T
01	0.205	0.219	0.31	0.266
02	0.525	0.063	0.388	0.024
03	0.407	0.136	0.457	0.0
04	0.0	0.999	0.0	0.001
05	0.999	0.0	0.0	0.001
06	0.001	0.003	0.913	0.083
07	0.711	0.264	0.02	0.005
08	0.048	0.002	0.0	0.95
09	0.001	0.001	0.975	0.023
10	0.016	0.071	0.793	0.12
11	0.092	0.432	0.233	0.243

PWM

	A	C	G	T
01	-0.197	-0.131	0.214	0.062
02	0.738	-1.358	0.437	-2.281
03	0.485	-0.603	0.6	-4.982
04	-4.982	1.38	-4.982	-4.525
05	1.38	-4.982	-4.982	-4.525
06	-4.525	-3.975	1.29	-1.089
07	1.041	0.054	-2.45	-3.622
08	-1.622	-4.213	-4.982	1.33
09	-4.525	-4.525	1.356	-2.32
10	-2.653	-1.242	1.15	-0.727
11	-0.988	0.544	-0.07	-0.028

Standard thresholds

P-value	Threshold
0.001	3.69002
0.0005	4.86678
0.0001	7.376915