NR2C1.H12INVITRO.0.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR2C1.H12INVITRO.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	ndAGGTCAhdvb
GC content	53.76%
Information content (bits; total / per base)	11.639 / 0.97
Data sources	HT-SELEX
Aligned words	2300

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)	0.742	0.805	0.615	0.707	0.716	0.803	2.161	2.723	74.022	146.469

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.976	0.958	0.963	0.942	0.928	0.904
Overall, 2 experiments	best	0.986	0.976	0.98	0.967	0.964	0.947
Methyl HT-SELEX, 1 experiments	median	0.986	0.976	0.98	0.967	0.964	0.947
Methyl HT-SELEX, 1 experiments	best	0.986	0.976	0.98	0.967	0.964	0.947
Non-Methyl HT-SELEX, 1 experiments	median	0.965	0.941	0.947	0.917	0.891	0.862
Non-Methyl HT-SELEX, 1 experiments	best	0.965	0.941	0.947	0.917	0.891	0.862

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	7.843	6.315	0.204	0.092

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.554	0.091	0.615	0.447

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.H12INVITRO.0.S.C.pcm
PWM	NR2C1.H12INVITRO.0.S.C.pwm
PFM	NR2C1.H12INVITRO.0.S.C.pfm
Alignment	NR2C1.H12INVITRO.0.S.C.words.tsv
Threshold to P-value map	NR2C1.H12INVITRO.0.S.C.thr
Motif in other formats
JASPAR format	NR2C1.H12INVITRO.0.S.C_jaspar_format.txt
MEME format	NR2C1.H12INVITRO.0.S.C_meme_format.meme
Transfac format	NR2C1.H12INVITRO.0.S.C_transfac_format.txt
Homer format	NR2C1.H12INVITRO.0.S.C_homer_format_0.001.txt NR2C1.H12INVITRO.0.S.C_homer_format_0.0005.txt NR2C1.H12INVITRO.0.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	716.75	525.75	448.75	608.75
02	1096.75	183.75	823.75	195.75
03	1607.0	9.0	680.0	4.0
04	0.0	0.0	2300.0	0.0
05	0.0	0.0	2300.0	0.0
06	0.0	0.0	0.0	2300.0
07	0.0	2296.0	0.0	4.0
08	2136.0	0.0	164.0	0.0
09	749.0	520.0	254.0	777.0
10	551.0	345.0	1048.0	356.0
11	458.0	375.0	1136.0	331.0
12	411.5	477.5	952.5	458.5

PFM

	A	C	G	T
01	0.312	0.229	0.195	0.265
02	0.477	0.08	0.358	0.085
03	0.699	0.004	0.296	0.002
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	0.998	0.0	0.002
08	0.929	0.0	0.071	0.0
09	0.326	0.226	0.11	0.338
10	0.24	0.15	0.456	0.155
11	0.199	0.163	0.494	0.144
12	0.179	0.208	0.414	0.199

PWM

	A	C	G	T
01	0.22	-0.089	-0.247	0.057
02	0.644	-1.134	0.358	-1.071
03	1.026	-3.966	0.167	-4.577
04	-5.698	-5.698	1.384	-5.698
05	-5.698	-5.698	1.384	-5.698
06	-5.698	-5.698	-5.698	1.384
07	-5.698	1.382	-5.698	-4.577
08	1.31	-5.698	-1.246	-5.698
09	0.264	-0.1	-0.813	0.3
10	-0.042	-0.509	0.599	-0.477
11	-0.227	-0.426	0.679	-0.55
12	-0.333	-0.185	0.503	-0.226

Standard thresholds

P-value	Threshold
0.001	3.067515
0.0005	5.38334
0.0001	7.827185