NRF1.H13RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NRF1.H13RSNP.0.PS.A
Gene (human)	NRF1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Nrf1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	16
Consensus	nbnvTGCGCATGCGCv
GC content	67.15%
Information content (bits; total / per base)	17.757 / 1.11
Data sources	ChIP-Seq + HT-SELEX
Aligned words	999
Previous names	NRF1.H12RSNP.0.PS.A

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	20 (135)	0.986	0.994	0.963	0.983	0.984	0.995	6.134	6.74	487.824	755.319
Mouse	14 (87)	0.985	0.996	0.961	0.992	0.982	0.992	6.122	6.882	492.638	820.398

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.858	0.862	0.745	0.758	0.625	0.655
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	0.881	0.895	0.69	0.738

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.258	9.459	0.163	0.11

TF superclass	Yet undefined DNA-binding domains {0} (TFClass)
TF class	Uncharacterized {0.0} (TFClass)
TF family	NRF {0.0.6} (TFClass)
TF subfamily	{0.0.6.0} (TFClass)
TFClass ID	TFClass: 0.0.6.0.1
HGNC	HGNC:7996
MGI	MGI:1332235
EntrezGene (human)	GeneID:4899 (SSTAR profile)
EntrezGene (mouse)	GeneID:18181 (SSTAR profile)
UniProt ID (human)	NRF1_HUMAN
UniProt ID (mouse)	NRF1_MOUSE
UniProt AC (human)	Q16656 (TFClass)
UniProt AC (mouse)	Q9WU00 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	20 human, 14 mouse
HT-SELEX	2
Methyl-HT-SELEX	0
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	NRF1.H13RSNP.0.PS.A.pcm
PWM	NRF1.H13RSNP.0.PS.A.pwm
PFM	NRF1.H13RSNP.0.PS.A.pfm
Threshold to P-value map	NRF1.H13RSNP.0.PS.A.thr
Motif in other formats
JASPAR format	NRF1.H13RSNP.0.PS.A_jaspar_format.txt
MEME format	NRF1.H13RSNP.0.PS.A_meme_format.meme
Transfac format	NRF1.H13RSNP.0.PS.A_transfac_format.txt
Homer format	NRF1.H13RSNP.0.PS.A_homer_format_0.001.txt NRF1.H13RSNP.0.PS.A_homer_format_0.0005.txt NRF1.H13RSNP.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	164.0	339.0	237.0	259.0
02	133.0	415.0	247.0	204.0
03	320.0	277.0	155.0	247.0
04	127.0	479.0	312.0	81.0
05	24.0	73.0	20.0	882.0
06	15.0	0.0	984.0	0.0
07	26.0	966.0	6.0	1.0
08	4.0	0.0	994.0	1.0
09	0.0	995.0	4.0	0.0
10	925.0	41.0	24.0	9.0
11	18.0	30.0	123.0	828.0
12	5.0	13.0	978.0	3.0
13	11.0	892.0	1.0	95.0
14	5.0	38.0	818.0	138.0
15	2.0	741.0	4.0	252.0
16	352.0	163.0	364.0	120.0

PFM

	A	C	G	T
01	0.164	0.339	0.237	0.259
02	0.133	0.415	0.247	0.204
03	0.32	0.277	0.155	0.247
04	0.127	0.479	0.312	0.081
05	0.024	0.073	0.02	0.883
06	0.015	0.0	0.985	0.0
07	0.026	0.967	0.006	0.001
08	0.004	0.0	0.995	0.001
09	0.0	0.996	0.004	0.0
10	0.926	0.041	0.024	0.009
11	0.018	0.03	0.123	0.829
12	0.005	0.013	0.979	0.003
13	0.011	0.893	0.001	0.095
14	0.005	0.038	0.819	0.138
15	0.002	0.742	0.004	0.252
16	0.352	0.163	0.364	0.12

PWM

	A	C	G	T
01	-0.417	0.304	-0.052	0.036
02	-0.624	0.505	-0.011	-0.201
03	0.246	0.103	-0.473	-0.011
04	-0.67	0.648	0.221	-1.112
05	-2.28	-1.214	-2.449	1.257
06	-2.71	-4.981	1.366	-4.981
07	-2.205	1.348	-3.483	-4.524
08	-3.782	-4.981	1.376	-4.524
09	-4.981	1.377	-3.782	-4.981
10	1.304	-1.773	-2.28	-3.155
11	-2.545	-2.07	-0.701	1.194
12	-3.621	-2.838	1.36	-3.974
13	-2.984	1.268	-4.524	-0.955
14	-3.621	-1.845	1.182	-0.588
15	-4.212	1.083	-3.782	0.009
16	0.341	-0.423	0.375	-0.726

Standard thresholds

P-value	Threshold
0.001	0.94201
0.0005	2.38811
0.0001	5.41756