PPARG.H12INVITRO.1.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PPARG.H12INVITRO.1.P.D
Gene (human)	PPARG (GeneCards)
Gene synonyms (human)	NR1C3
Gene (mouse)	Pparg
Gene synonyms (mouse)	Nr1c3
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	11
Consensus	RbSARAGKbSM
GC content	53.5%
Information content (bits; total / per base)	9.291 / 0.845
Data sources	ChIP-Seq
Aligned words	1007

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	18 (110)	0.772	0.84	0.62	0.72	0.715	0.794	1.948	2.517	76.701	153.886
Mouse	67 (374)	0.762	0.838	0.617	0.721	0.739	0.827	2.142	2.661	81.981	183.678

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.958	2.433	0.112	0.109

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Nuclear receptors with C4 zinc fingers {2.1} (TFClass)
TF family	Thyroid hormone receptor-related {2.1.2} (TFClass)
TF subfamily	PPAR (NR1C) {2.1.2.5} (TFClass)
TFClass ID	TFClass: 2.1.2.5.3
HGNC	HGNC:9236
MGI	MGI:97747
EntrezGene (human)	GeneID:5468 (SSTAR profile)
EntrezGene (mouse)	GeneID:19016 (SSTAR profile)
UniProt ID (human)	PPARG_HUMAN
UniProt ID (mouse)	PPARG_MOUSE
UniProt AC (human)	P37231 (TFClass)
UniProt AC (mouse)	P37238 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	18 human, 67 mouse
HT-SELEX	0
Methyl-HT-SELEX	0

PCM	PPARG.H12INVITRO.1.P.D.pcm
PWM	PPARG.H12INVITRO.1.P.D.pwm
PFM	PPARG.H12INVITRO.1.P.D.pfm
Alignment	PPARG.H12INVITRO.1.P.D.words.tsv
Threshold to P-value map	PPARG.H12INVITRO.1.P.D.thr
Motif in other formats
JASPAR format	PPARG.H12INVITRO.1.P.D_jaspar_format.txt
MEME format	PPARG.H12INVITRO.1.P.D_meme_format.meme
Transfac format	PPARG.H12INVITRO.1.P.D_transfac_format.txt
Homer format	PPARG.H12INVITRO.1.P.D_homer_format_0.001.txt PPARG.H12INVITRO.1.P.D_homer_format_0.0005.txt PPARG.H12INVITRO.1.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	176.0	43.0	682.0	106.0
02	152.0	153.0	533.0	169.0
03	80.0	679.0	190.0	58.0
04	957.0	22.0	10.0	18.0
05	604.0	42.0	342.0	19.0
06	874.0	3.0	115.0	15.0
07	74.0	7.0	899.0	27.0
08	75.0	22.0	758.0	152.0
09	64.0	121.0	340.0	482.0
10	65.0	632.0	193.0	117.0
11	794.0	74.0	66.0	73.0

PFM

	A	C	G	T
01	0.175	0.043	0.677	0.105
02	0.151	0.152	0.529	0.168
03	0.079	0.674	0.189	0.058
04	0.95	0.022	0.01	0.018
05	0.6	0.042	0.34	0.019
06	0.868	0.003	0.114	0.015
07	0.073	0.007	0.893	0.027
08	0.074	0.022	0.753	0.151
09	0.064	0.12	0.338	0.479
10	0.065	0.628	0.192	0.116
11	0.788	0.073	0.066	0.072

PWM

	A	C	G	T
01	-0.355	-1.735	0.992	-0.856
02	-0.5	-0.494	0.746	-0.395
03	-1.132	0.988	-0.279	-1.445
04	1.33	-2.369	-3.073	-2.553
05	0.871	-1.757	0.305	-2.504
06	1.24	-3.982	-0.775	-2.718
07	-1.208	-3.369	1.268	-2.177
08	-1.195	-2.369	1.098	-0.5
09	-1.35	-0.725	0.299	0.646
10	-1.335	0.916	-0.264	-0.758
11	1.144	-1.208	-1.32	-1.221

Standard thresholds

P-value	Threshold
0.001	4.84439
0.0005	5.61591
0.0001	7.203685