NGN2.H12INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NGN2.H12INVIVO.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	13
Consensus	vvdRRCAGATGKb
GC content	58.18%
Information content (bits; total / per base)	13.738 / 1.057
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)	0.939	0.962	0.85	0.904	0.907	0.926	3.143	3.308	185.194	258.658
Mouse	5 (31)	0.955	0.975	0.893	0.945	0.932	0.949	3.734	3.92	251.018	355.377

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.92	0.854	0.771	0.755	0.645	0.659
Overall, 5 experiments	best	0.931	0.881	0.833	0.793	0.697	0.694
Methyl HT-SELEX, 1 experiments	median	0.771	0.695	0.632	0.618	0.565	0.571
Methyl HT-SELEX, 1 experiments	best	0.771	0.695	0.632	0.618	0.565	0.571
Non-Methyl HT-SELEX, 4 experiments	median	0.921	0.864	0.776	0.76	0.647	0.661
Non-Methyl HT-SELEX, 4 experiments	best	0.931	0.881	0.833	0.793	0.697	0.694

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.H12INVIVO.0.P.B.pcm
PWM	NGN2.H12INVIVO.0.P.B.pwm
PFM	NGN2.H12INVIVO.0.P.B.pfm
Alignment	NGN2.H12INVIVO.0.P.B.words.tsv
Threshold to P-value map	NGN2.H12INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	NGN2.H12INVIVO.0.P.B_jaspar_format.txt
MEME format	NGN2.H12INVIVO.0.P.B_meme_format.meme
Transfac format	NGN2.H12INVIVO.0.P.B_transfac_format.txt
Homer format	NGN2.H12INVIVO.0.P.B_homer_format_0.001.txt NGN2.H12INVIVO.0.P.B_homer_format_0.0005.txt NGN2.H12INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	310.0	169.0	379.0	142.0
02	257.0	189.0	449.0	105.0
03	170.0	159.0	337.0	334.0
04	419.0	39.0	538.0	4.0
05	454.0	105.0	440.0	1.0
06	0.0	1000.0	0.0	0.0
07	1000.0	0.0	0.0	0.0
08	0.0	1.0	984.0	15.0
09	721.0	271.0	7.0	1.0
10	12.0	2.0	0.0	986.0
11	0.0	0.0	1000.0	0.0
12	9.0	101.0	777.0	113.0
13	104.0	412.0	205.0	279.0

PFM

	A	C	G	T
01	0.31	0.169	0.379	0.142
02	0.257	0.189	0.449	0.105
03	0.17	0.159	0.337	0.334
04	0.419	0.039	0.538	0.004
05	0.454	0.105	0.44	0.001
06	0.0	1.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.001	0.984	0.015
09	0.721	0.271	0.007	0.001
10	0.012	0.002	0.0	0.986
11	0.0	0.0	1.0	0.0
12	0.009	0.101	0.777	0.113
13	0.104	0.412	0.205	0.279

PWM

	A	C	G	T
01	0.214	-0.388	0.414	-0.56
02	0.027	-0.278	0.583	-0.858
03	-0.382	-0.449	0.297	0.288
04	0.514	-1.821	0.763	-3.783
05	0.594	-0.858	0.562	-4.525
06	-4.982	1.381	-4.982	-4.982
07	1.381	-4.982	-4.982	-4.982
08	-4.982	-4.525	1.365	-2.711
09	1.055	0.08	-3.362	-4.525
10	-2.909	-4.213	-4.982	1.367
11	-4.982	-4.982	1.381	-4.982
12	-3.156	-0.896	1.129	-0.786
13	-0.867	0.497	-0.197	0.109

Standard thresholds

P-value	Threshold
0.001	2.67611
0.0005	3.93851
0.0001	7.02513