NR2C1.H12INVIVO.0.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR2C1.H12INVIVO.0.S.C
Gene (human)	NR2C1 (GeneCards)
Gene synonyms (human)	TR2
Gene (mouse)	Nr2c1
Gene synonyms (mouse)	Tr2, Tr2-11
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	12
Consensus	ndAGGTCAnvvn
GC content	54.87%
Information content (bits; total / per base)	11.293 / 0.941
Data sources	HT-SELEX
Aligned words	8806

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	3 (21)	0.738	0.805	0.618	0.71	0.718	0.801	2.189	2.742	74.886	145.62

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.975	0.957	0.963	0.941	0.927	0.904
Overall, 2 experiments	best	0.986	0.975	0.979	0.966	0.963	0.946
Methyl HT-SELEX, 1 experiments	median	0.986	0.975	0.979	0.966	0.963	0.946
Methyl HT-SELEX, 1 experiments	best	0.986	0.975	0.979	0.966	0.963	0.946
Non-Methyl HT-SELEX, 1 experiments	median	0.965	0.94	0.947	0.917	0.891	0.861
Non-Methyl HT-SELEX, 1 experiments	best	0.965	0.94	0.947	0.917	0.891	0.861

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	8.057	6.577	0.216	0.092

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.579	0.086	0.613	0.448

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: 2.1.3.4.1
HGNC	HGNC:7971
MGI	MGI:1352465
EntrezGene (human)	GeneID:7181 (SSTAR profile)
EntrezGene (mouse)	GeneID:22025 (SSTAR profile)
UniProt ID (human)	NR2C1_HUMAN
UniProt ID (mouse)	NR2C1_MOUSE
UniProt AC (human)	P13056 (TFClass)
UniProt AC (mouse)	Q505F1 (TFClass)
GRECO-DB-TF	yes

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

PCM	NR2C1.H12INVIVO.0.S.C.pcm
PWM	NR2C1.H12INVIVO.0.S.C.pwm
PFM	NR2C1.H12INVIVO.0.S.C.pfm
Alignment	NR2C1.H12INVIVO.0.S.C.words.tsv
Threshold to P-value map	NR2C1.H12INVIVO.0.S.C.thr
Motif in other formats
JASPAR format	NR2C1.H12INVIVO.0.S.C_jaspar_format.txt
MEME format	NR2C1.H12INVIVO.0.S.C_meme_format.meme
Transfac format	NR2C1.H12INVIVO.0.S.C_transfac_format.txt
Homer format	NR2C1.H12INVIVO.0.S.C_homer_format_0.001.txt NR2C1.H12INVIVO.0.S.C_homer_format_0.0005.txt NR2C1.H12INVIVO.0.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2608.0	2065.0	1963.0	2170.0
02	3774.75	764.75	3226.75	1039.75
03	5869.0	65.0	2843.0	29.0
04	0.0	0.0	8805.0	1.0
05	0.0	0.0	8806.0	0.0
06	0.0	0.0	0.0	8806.0
07	0.0	8766.0	2.0	38.0
08	8074.0	2.0	730.0	0.0
09	2590.0	2176.0	1290.0	2750.0
10	2043.0	1482.0	3931.0	1350.0
11	1663.0	1442.0	4303.0	1398.0
12	1703.0	1816.0	3507.0	1780.0

PFM

	A	C	G	T
01	0.296	0.234	0.223	0.246
02	0.429	0.087	0.366	0.118
03	0.666	0.007	0.323	0.003
04	0.0	0.0	1.0	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	0.0	1.0
07	0.0	0.995	0.0	0.004
08	0.917	0.0	0.083	0.0
09	0.294	0.247	0.146	0.312
10	0.232	0.168	0.446	0.153
11	0.189	0.164	0.489	0.159
12	0.193	0.206	0.398	0.202

PWM

	A	C	G	T
01	0.169	-0.064	-0.115	-0.014
02	0.539	-1.055	0.382	-0.749
03	0.98	-3.489	0.255	-4.255
04	-6.878	-6.878	1.385	-6.513
05	-6.878	-6.878	1.386	-6.878
06	-6.878	-6.878	-6.878	1.386
07	-6.878	1.381	-6.246	-4.002
08	1.299	-6.246	-1.102	-6.878
09	0.162	-0.012	-0.534	0.222
10	-0.075	-0.395	0.579	-0.488
11	-0.28	-0.423	0.67	-0.454
12	-0.256	-0.192	0.465	-0.212

Standard thresholds

P-value	Threshold
0.001	3.461415
0.0005	5.655565
0.0001	7.827395