NR5A2.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	NR5A2.H12INVIVO.0.PSM.A
Gene (human)	NR5A2 (GeneCards)
Gene synonyms (human)	B1F, CPF, FTF
Gene (mouse)	Nr5a2
Gene synonyms (mouse)	Lrh1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	bYCAAGGYCR
GC content	54.98%
Information content (bits; total / per base)	12.265 / 1.227
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	996

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	1 (5)	0.89	0.914	0.817	0.852	0.859	0.883	3.027	3.143	160.0	203.131
Mouse	6 (34)	0.913	0.942	0.815	0.89	0.904	0.943	3.491	3.958	133.757	414.036

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.98	0.976	0.783	0.806	0.632	0.677
Overall, 2 experiments	best	0.987	0.984	0.809	0.827	0.645	0.691
Methyl HT-SELEX, 1 experiments	median	0.972	0.968	0.758	0.784	0.618	0.663
Methyl HT-SELEX, 1 experiments	best	0.972	0.968	0.758	0.784	0.618	0.663
Non-Methyl HT-SELEX, 1 experiments	median	0.987	0.984	0.809	0.827	0.645	0.691
Non-Methyl HT-SELEX, 1 experiments	best	0.987	0.984	0.809	0.827	0.645	0.691

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	FTZF1-related (NR5A) {2.1.5} (TFClass)
TF subfamily	{2.1.5.0} (TFClass)
TFClass ID	TFClass: 2.1.5.0.2
HGNC	HGNC:7984
MGI	MGI:1346834
EntrezGene (human)	GeneID:2494 (SSTAR profile)
EntrezGene (mouse)	GeneID:26424 (SSTAR profile)
UniProt ID (human)	NR5A2_HUMAN
UniProt ID (mouse)	NR5A2_MOUSE
UniProt AC (human)	O00482 (TFClass)
UniProt AC (mouse)	P45448 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 6 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	NR5A2.H12INVIVO.0.PSM.A.pcm
PWM	NR5A2.H12INVIVO.0.PSM.A.pwm
PFM	NR5A2.H12INVIVO.0.PSM.A.pfm
Alignment	NR5A2.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	NR5A2.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	NR5A2.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	NR5A2.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	NR5A2.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	NR5A2.H12INVIVO.0.PSM.A_homer_format_0.001.txt NR5A2.H12INVIVO.0.PSM.A_homer_format_0.0005.txt NR5A2.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	66.0	297.0	274.0	359.0
02	51.0	421.0	27.0	497.0
03	4.0	933.0	57.0	2.0
04	980.0	10.0	5.0	1.0
05	944.0	2.0	36.0	14.0
06	4.0	1.0	990.0	1.0
07	1.0	1.0	987.0	7.0
08	104.0	396.0	39.0	457.0
09	15.0	834.0	8.0	139.0
10	741.0	38.0	120.0	97.0

PFM

	A	C	G	T
01	0.066	0.298	0.275	0.36
02	0.051	0.423	0.027	0.499
03	0.004	0.937	0.057	0.002
04	0.984	0.01	0.005	0.001
05	0.948	0.002	0.036	0.014
06	0.004	0.001	0.994	0.001
07	0.001	0.001	0.991	0.007
08	0.104	0.398	0.039	0.459
09	0.015	0.837	0.008	0.14
10	0.744	0.038	0.12	0.097

PWM

	A	C	G	T
01	-1.309	0.175	0.095	0.364
02	-1.559	0.522	-2.167	0.688
03	-3.779	1.316	-1.451	-4.209
04	1.365	-3.063	-3.618	-4.522
05	1.328	-4.209	-1.894	-2.769
06	-3.779	-4.522	1.375	-4.522
07	-4.522	-4.522	1.372	-3.358
08	-0.864	0.461	-1.817	0.604
09	-2.707	1.204	-3.25	-0.578
10	1.086	-1.842	-0.723	-0.932

Standard thresholds

P-value	Threshold
0.001	3.846815
0.0005	4.96949
0.0001	7.30505