NR2C2.H12INVIVO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR2C2.H12INVIVO.0.SM.B
Gene (human)	NR2C2 (GeneCards)
Gene synonyms (human)	TAK1, TR4
Gene (mouse)	Nr2c2
Gene synonyms (mouse)	Mtr2r1, Tak1, Tr4
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	nndAGGTCAhdd
GC content	52.03%
Information content (bits; total / per base)	10.427 / 0.869
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9457

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	4 (27)	0.669	0.809	0.563	0.715	0.657	0.804	1.847	2.674	46.959	109.481

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.946	0.924	0.896	0.871	0.763	0.761
Overall, 4 experiments	best	0.991	0.988	0.956	0.932	0.91	0.884
Methyl HT-SELEX, 1 experiments	median	0.971	0.953	0.956	0.932	0.91	0.884
Methyl HT-SELEX, 1 experiments	best	0.971	0.953	0.956	0.932	0.91	0.884
Non-Methyl HT-SELEX, 3 experiments	median	0.921	0.895	0.869	0.825	0.755	0.745
Non-Methyl HT-SELEX, 3 experiments	best	0.991	0.988	0.924	0.918	0.771	0.778

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	RXR-related receptors {2.1.3} (TFClass)
TF subfamily	TR (NR2C) {2.1.3.4} (TFClass)
TFClass ID	TFClass: 2.1.3.4.2
HGNC	HGNC:7972
MGI	MGI:1352466
EntrezGene (human)	GeneID:7182 (SSTAR profile)
EntrezGene (mouse)	GeneID:22026 (SSTAR profile)
UniProt ID (human)	NR2C2_HUMAN
UniProt ID (mouse)	NR2C2_MOUSE
UniProt AC (human)	P49116 (TFClass)
UniProt AC (mouse)	P49117 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	4 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	NR2C2.H12INVIVO.0.SM.B.pcm
PWM	NR2C2.H12INVIVO.0.SM.B.pwm
PFM	NR2C2.H12INVIVO.0.SM.B.pfm
Alignment	NR2C2.H12INVIVO.0.SM.B.words.tsv
Threshold to P-value map	NR2C2.H12INVIVO.0.SM.B.thr
Motif in other formats
JASPAR format	NR2C2.H12INVIVO.0.SM.B_jaspar_format.txt
MEME format	NR2C2.H12INVIVO.0.SM.B_meme_format.meme
Transfac format	NR2C2.H12INVIVO.0.SM.B_transfac_format.txt
Homer format	NR2C2.H12INVIVO.0.SM.B_homer_format_0.001.txt NR2C2.H12INVIVO.0.SM.B_homer_format_0.0005.txt NR2C2.H12INVIVO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1728.5	2698.5	2371.5	2658.5
02	3680.0	1576.0	1875.0	2326.0
03	4664.5	590.5	2858.5	1343.5
04	6774.0	6.0	2671.0	6.0
05	1.0	0.0	9454.0	2.0
06	0.0	0.0	9411.0	46.0
07	1.0	0.0	8.0	9448.0
08	3.0	8445.0	50.0	959.0
09	6809.0	5.0	2633.0	10.0
10	2609.25	2493.25	1119.25	3235.25
11	2590.25	1328.25	4050.25	1488.25
12	2411.25	1589.25	3815.25	1641.25

PFM

	A	C	G	T
01	0.183	0.285	0.251	0.281
02	0.389	0.167	0.198	0.246
03	0.493	0.062	0.302	0.142
04	0.716	0.001	0.282	0.001
05	0.0	0.0	1.0	0.0
06	0.0	0.0	0.995	0.005
07	0.0	0.0	0.001	0.999
08	0.0	0.893	0.005	0.101
09	0.72	0.001	0.278	0.001
10	0.276	0.264	0.118	0.342
11	0.274	0.14	0.428	0.157
12	0.255	0.168	0.403	0.174

PWM

	A	C	G	T
01	-0.313	0.132	0.003	0.117
02	0.442	-0.405	-0.232	-0.016
03	0.679	-1.384	0.19	-0.564
04	1.052	-5.654	0.122	-5.654
05	-6.579	-6.941	1.385	-6.313
06	-6.941	-6.941	1.381	-3.892
07	-6.579	-6.941	-5.438	1.385
08	-6.104	1.272	-3.812	-0.901
09	1.057	-5.783	0.108	-5.261
10	0.099	0.053	-0.747	0.313
11	0.091	-0.576	0.538	-0.462
12	0.02	-0.397	0.478	-0.365

Standard thresholds

P-value	Threshold
0.001	4.893345
0.0005	6.110385
0.0001	7.66657