NDF1.H14CORE.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NDF1.H14CORE.0.P.B
Gene (human)	NEUROD1 (GeneCards)
Gene synonyms (human)	BHLHA3, NEUROD
Gene (mouse)	Neurod1
Gene synonyms (mouse)	Neurod
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	11
Consensus	dRRCAGMTGGb
GC content	56.47%
Information content (bits; total / per base)	13.187 / 1.199
Data sources	ChIP-Seq
Aligned words	1001
Previous names	NDF1.H12CORE.0.P.B

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	6 (39)	0.831	0.953	0.783	0.908	0.816	0.941	3.114	3.858	199.824	388.699
Mouse	4 (21)	0.938	0.973	0.864	0.939	0.931	0.958	3.8	4.337	276.328	586.194

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.806	0.731	0.68	0.654	0.596	0.596
Non-Methyl HT-SELEX, 1 experiments	best	0.806	0.731	0.68	0.654	0.596	0.596

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: 1.2.3.4.1
HGNC	HGNC:7762
MGI	MGI:1339708
EntrezGene (human)	GeneID:4760 (SSTAR profile)
EntrezGene (mouse)	GeneID:18012 (SSTAR profile)
UniProt ID (human)	NDF1_HUMAN
UniProt ID (mouse)	NDF1_MOUSE
UniProt AC (human)	Q13562 (TFClass)
UniProt AC (mouse)	Q60867 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	6 human, 4 mouse
HT-SELEX	1
Methyl-HT-SELEX	0
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	NDF1.H14CORE.0.P.B.pcm
PWM	NDF1.H14CORE.0.P.B.pwm
PFM	NDF1.H14CORE.0.P.B.pfm
Threshold to P-value map	NDF1.H14CORE.0.P.B.thr
Motif in other formats
JASPAR format	NDF1.H14CORE.0.P.B_jaspar_format.txt
MEME format	NDF1.H14CORE.0.P.B_meme_format.meme
Transfac format	NDF1.H14CORE.0.P.B_transfac_format.txt
Homer format	NDF1.H14CORE.0.P.B_homer_format_0.001.txt NDF1.H14CORE.0.P.B_homer_format_0.0005.txt NDF1.H14CORE.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	189.0	153.0	382.0	277.0
02	421.0	58.0	482.0	40.0
03	474.0	212.0	315.0	0.0
04	1.0	1000.0	0.0	0.0
05	1001.0	0.0	0.0	0.0
06	0.0	1.0	965.0	35.0
07	725.0	228.0	46.0	2.0
08	4.0	2.0	0.0	995.0
09	0.0	0.0	994.0	7.0
10	2.0	24.0	815.0	160.0
11	72.0	408.0	133.0	388.0

PFM

	A	C	G	T
01	0.189	0.153	0.382	0.277
02	0.421	0.058	0.482	0.04
03	0.474	0.212	0.315	0.0
04	0.001	0.999	0.0	0.0
05	1.0	0.0	0.0	0.0
06	0.0	0.001	0.964	0.035
07	0.724	0.228	0.046	0.002
08	0.004	0.002	0.0	0.994
09	0.0	0.0	0.993	0.007
10	0.002	0.024	0.814	0.16
11	0.072	0.408	0.133	0.388

PWM

	A	C	G	T
01	-0.278	-0.488	0.421	0.101
02	0.517	-1.44	0.652	-1.798
03	0.636	-0.165	0.229	-4.983
04	-4.526	1.38	-4.983	-4.983
05	1.381	-4.983	-4.983	-4.983
06	-4.983	-4.526	1.345	-1.926
07	1.059	-0.092	-1.664	-4.214
08	-3.784	-4.214	-4.983	1.375
09	-4.983	-4.983	1.374	-3.363
10	-4.214	-2.282	1.176	-0.443
11	-1.229	0.486	-0.626	0.436

Standard thresholds

P-value	Threshold
0.001	2.996635
0.0005	4.25045
0.0001	7.280065