NR2C1.H12INVIVO.1.PM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR2C1.H12INVIVO.1.PM.A
Gene (human)	NR2C1 (GeneCards)
Gene synonyms (human)	TR2
Gene (mouse)	Nr2c1
Gene synonyms (mouse)	Tr2, Tr2-11
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	15
Consensus	bKYMvRGGTCAvdRb
GC content	59.35%
Information content (bits; total / per base)	11.86 / 0.791
Data sources	ChIP-Seq + Methyl-HT-SELEX
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	3 (21)	0.773	0.856	0.683	0.781	0.754	0.839	2.828	3.672	104.022	188.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.953	0.927	0.922	0.889	0.869	0.835
Overall, 2 experiments	best	0.975	0.96	0.953	0.931	0.912	0.884
Methyl HT-SELEX, 1 experiments	median	0.975	0.96	0.953	0.931	0.912	0.884
Methyl HT-SELEX, 1 experiments	best	0.975	0.96	0.953	0.931	0.912	0.884
Non-Methyl HT-SELEX, 1 experiments	median	0.931	0.894	0.891	0.848	0.826	0.787
Non-Methyl HT-SELEX, 1 experiments	best	0.931	0.894	0.891	0.848	0.826	0.787

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	7.481	6.994	0.171	0.105

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.595	0.049	0.471	0.322

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.1.PM.A.pcm
PWM	NR2C1.H12INVIVO.1.PM.A.pwm
PFM	NR2C1.H12INVIVO.1.PM.A.pfm
Alignment	NR2C1.H12INVIVO.1.PM.A.words.tsv
Threshold to P-value map	NR2C1.H12INVIVO.1.PM.A.thr
Motif in other formats
JASPAR format	NR2C1.H12INVIVO.1.PM.A_jaspar_format.txt
MEME format	NR2C1.H12INVIVO.1.PM.A_meme_format.meme
Transfac format	NR2C1.H12INVIVO.1.PM.A_transfac_format.txt
Homer format	NR2C1.H12INVIVO.1.PM.A_homer_format_0.001.txt NR2C1.H12INVIVO.1.PM.A_homer_format_0.0005.txt NR2C1.H12INVIVO.1.PM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	42.0	274.0	506.0	178.0
02	32.0	99.0	140.0	729.0
03	49.0	502.0	107.0	342.0
04	523.0	378.0	64.0	35.0
05	272.0	265.0	442.0	21.0
06	534.0	3.0	459.0	4.0
07	20.0	9.0	966.0	5.0
08	7.0	15.0	918.0	60.0
09	10.0	24.0	138.0	828.0
10	17.0	884.0	68.0	31.0
11	870.0	7.0	105.0	18.0
12	315.0	159.0	455.0	71.0
13	467.0	97.0	338.0	98.0
14	118.0	108.0	661.0	113.0
15	132.0	173.0	539.0	156.0

PFM

	A	C	G	T
01	0.042	0.274	0.506	0.178
02	0.032	0.099	0.14	0.729
03	0.049	0.502	0.107	0.342
04	0.523	0.378	0.064	0.035
05	0.272	0.265	0.442	0.021
06	0.534	0.003	0.459	0.004
07	0.02	0.009	0.966	0.005
08	0.007	0.015	0.918	0.06
09	0.01	0.024	0.138	0.828
10	0.017	0.884	0.068	0.031
11	0.87	0.007	0.105	0.018
12	0.315	0.159	0.455	0.071
13	0.467	0.097	0.338	0.098
14	0.118	0.108	0.661	0.113
15	0.132	0.173	0.539	0.156

PWM

	A	C	G	T
01	-1.75	0.091	0.702	-0.337
02	-2.01	-0.916	-0.574	1.066
03	-1.602	0.694	-0.84	0.312
04	0.735	0.411	-1.343	-1.925
05	0.084	0.058	0.567	-2.405
06	0.755	-3.975	0.604	-3.783
07	-2.45	-3.156	1.347	-3.622
08	-3.362	-2.711	1.296	-1.406
09	-3.066	-2.281	-0.589	1.193
10	-2.598	1.258	-1.284	-2.04
11	1.242	-3.362	-0.858	-2.546
12	0.23	-0.449	0.596	-1.242
13	0.622	-0.936	0.3	-0.926
14	-0.743	-0.83	0.968	-0.786
15	-0.633	-0.365	0.765	-0.467

Standard thresholds

P-value	Threshold
0.001	4.25241
0.0005	5.20396
0.0001	7.16416