NR2C2.H12INVIVO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR2C2.H12INVIVO.1.PS.A
Gene (human)	NR2C2 (GeneCards)
Gene synonyms (human)	TAK1, TR4
Gene (mouse)	Nr2c2
Gene synonyms (mouse)	Mtr2r1, Tak1, Tr4
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	12
Consensus	RbTYMSGGGKSR
GC content	60.6%
Information content (bits; total / per base)	10.53 / 0.878
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1002

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)	0.792	0.843	0.712	0.754	0.769	0.802	2.701	3.113	76.854	251.553

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.897	0.863	0.79	0.767	0.685	0.687
Overall, 4 experiments	best	0.991	0.985	0.91	0.906	0.777	0.76
Methyl HT-SELEX, 1 experiments	median	0.907	0.862	0.857	0.809	0.777	0.741
Methyl HT-SELEX, 1 experiments	best	0.907	0.862	0.857	0.809	0.777	0.741
Non-Methyl HT-SELEX, 3 experiments	median	0.887	0.863	0.723	0.725	0.64	0.633
Non-Methyl HT-SELEX, 3 experiments	best	0.991	0.985	0.91	0.906	0.73	0.76

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.1.PS.A.pcm
PWM	NR2C2.H12INVIVO.1.PS.A.pwm
PFM	NR2C2.H12INVIVO.1.PS.A.pfm
Alignment	NR2C2.H12INVIVO.1.PS.A.words.tsv
Threshold to P-value map	NR2C2.H12INVIVO.1.PS.A.thr
Motif in other formats
JASPAR format	NR2C2.H12INVIVO.1.PS.A_jaspar_format.txt
MEME format	NR2C2.H12INVIVO.1.PS.A_meme_format.meme
Transfac format	NR2C2.H12INVIVO.1.PS.A_transfac_format.txt
Homer format	NR2C2.H12INVIVO.1.PS.A_homer_format_0.001.txt NR2C2.H12INVIVO.1.PS.A_homer_format_0.0005.txt NR2C2.H12INVIVO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	240.0	95.0	601.0	66.0
02	33.0	369.0	446.0	154.0
03	24.0	30.0	66.0	882.0
04	5.0	380.0	59.0	558.0
05	375.0	590.0	27.0	10.0
06	231.0	495.0	262.0	14.0
07	395.0	1.0	604.0	2.0
08	13.0	5.0	967.0	17.0
09	36.0	10.0	843.0	113.0
10	20.0	36.0	225.0	721.0
11	22.0	765.0	122.0	93.0
12	676.0	58.0	230.0	38.0

PFM

	A	C	G	T
01	0.24	0.095	0.6	0.066
02	0.033	0.368	0.445	0.154
03	0.024	0.03	0.066	0.88
04	0.005	0.379	0.059	0.557
05	0.374	0.589	0.027	0.01
06	0.231	0.494	0.261	0.014
07	0.394	0.001	0.603	0.002
08	0.013	0.005	0.965	0.017
09	0.036	0.01	0.841	0.113
10	0.02	0.036	0.225	0.72
11	0.022	0.763	0.122	0.093
12	0.675	0.058	0.23	0.038

PWM

	A	C	G	T
01	-0.043	-0.958	0.871	-1.315
02	-1.983	0.385	0.574	-0.482
03	-2.283	-2.073	-1.315	1.254
04	-3.624	0.414	-1.424	0.797
05	0.401	0.853	-2.172	-3.068
06	-0.08	0.678	0.045	-2.775
07	0.453	-4.527	0.876	-4.215
08	-2.841	-3.624	1.346	-2.6
09	-1.9	-3.068	1.209	-0.788
10	-2.452	-1.9	-0.107	1.053
11	-2.364	1.112	-0.712	-0.979
12	0.988	-1.441	-0.085	-1.848

Standard thresholds

P-value	Threshold
0.001	4.62176
0.0005	5.50193
0.0001	7.28934