NGN1.H12RSNP.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NGN1.H12RSNP.0.SM.D
Gene (human)	NEUROG1 (GeneCards)
Gene synonyms (human)	BHLHA6, NEUROD3, NGN, NGN1
Gene (mouse)	Neurog1
Gene synonyms (mouse)	Ath4c, Neurod3, Ngn, Ngn1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	14
Consensus	ndYRACATATGYYn
GC content	42.41%
Information content (bits; total / per base)	16.065 / 1.148
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9939

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.997	0.995	0.92	0.92	0.753	0.777
Overall, 4 experiments	best	1.0	0.999	0.994	0.994	0.821	0.849
Methyl HT-SELEX, 2 experiments	median	0.998	0.997	0.919	0.924	0.757	0.785
Methyl HT-SELEX, 2 experiments	best	1.0	0.999	0.994	0.994	0.821	0.849
Non-Methyl HT-SELEX, 2 experiments	median	0.996	0.994	0.92	0.92	0.753	0.777
Non-Methyl HT-SELEX, 2 experiments	best	0.997	0.995	0.935	0.934	0.764	0.789

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: 1.2.3.4.5
HGNC	HGNC:7764
MGI	MGI:107754
EntrezGene (human)	GeneID:4762 (SSTAR profile)
EntrezGene (mouse)	GeneID:18014 (SSTAR profile)
UniProt ID (human)	NGN1_HUMAN
UniProt ID (mouse)	NGN1_MOUSE
UniProt AC (human)	Q92886 (TFClass)
UniProt AC (mouse)	P70660 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	2

PCM	NGN1.H12RSNP.0.SM.D.pcm
PWM	NGN1.H12RSNP.0.SM.D.pwm
PFM	NGN1.H12RSNP.0.SM.D.pfm
Alignment	NGN1.H12RSNP.0.SM.D.words.tsv
Threshold to P-value map	NGN1.H12RSNP.0.SM.D.thr
Motif in other formats
JASPAR format	NGN1.H12RSNP.0.SM.D_jaspar_format.txt
MEME format	NGN1.H12RSNP.0.SM.D_meme_format.meme
Transfac format	NGN1.H12RSNP.0.SM.D_transfac_format.txt
Homer format	NGN1.H12RSNP.0.SM.D_homer_format_0.001.txt NGN1.H12RSNP.0.SM.D_homer_format_0.0005.txt NGN1.H12RSNP.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2379.0	2876.0	2666.0	2018.0
02	2552.75	825.75	5495.75	1064.75
03	141.0	3969.0	683.0	5146.0
04	3393.0	103.0	6392.0	51.0
05	7968.0	980.0	944.0	47.0
06	8.0	9898.0	33.0	0.0
07	9909.0	4.0	23.0	3.0
08	2.0	6.0	15.0	9916.0
09	9918.0	4.0	9.0	8.0
10	8.0	13.0	10.0	9908.0
11	14.0	17.0	9899.0	9.0
12	35.0	2399.0	2161.0	5344.0
13	219.5	3744.5	397.5	5577.5
14	2830.75	2547.75	2896.75	1663.75

PFM

	A	C	G	T
01	0.239	0.289	0.268	0.203
02	0.257	0.083	0.553	0.107
03	0.014	0.399	0.069	0.518
04	0.341	0.01	0.643	0.005
05	0.802	0.099	0.095	0.005
06	0.001	0.996	0.003	0.0
07	0.997	0.0	0.002	0.0
08	0.0	0.001	0.002	0.998
09	0.998	0.0	0.001	0.001
10	0.001	0.001	0.001	0.997
11	0.001	0.002	0.996	0.001
12	0.004	0.241	0.217	0.538
13	0.022	0.377	0.04	0.561
14	0.285	0.256	0.291	0.167

PWM

	A	C	G	T
01	-0.043	0.146	0.07	-0.208
02	0.027	-1.1	0.793	-0.846
03	-2.854	0.468	-1.289	0.728
04	0.311	-3.162	0.944	-3.843
05	1.165	-0.929	-0.966	-3.921
06	-5.487	1.381	-4.255	-6.985
07	1.383	-5.978	-4.588	-6.151
08	-6.36	-5.702	-4.968	1.383
09	1.383	-5.978	-5.394	-5.487
10	-5.487	-5.091	-5.309	1.382
11	-5.028	-4.859	1.382	-5.394
12	-4.2	-0.035	-0.139	0.765
13	-2.417	0.41	-1.828	0.808
14	0.13	0.025	0.153	-0.401

Standard thresholds

P-value	Threshold
0.001	-0.02429
0.0005	1.81701
0.0001	5.20176