PPARG.H12INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PPARG.H12INVIVO.0.P.B
Gene (human)	PPARG (GeneCards)
Gene synonyms (human)	NR1C3
Gene (mouse)	Pparg
Gene synonyms (mouse)	Nr1c3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	17
Consensus	hWbYRGGbbARAGGKYR
GC content	48.3%
Information content (bits; total / per base)	12.612 / 0.742
Data sources	ChIP-Seq
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	18 (110)	0.892	0.937	0.825	0.899	0.875	0.922	3.352	4.276	198.722	333.456
Mouse	67 (374)	0.874	0.97	0.801	0.936	0.867	0.965	3.365	4.825	188.618	344.004

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.033	5.385	0.216	0.165

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.H12INVIVO.0.P.B.pcm
PWM	PPARG.H12INVIVO.0.P.B.pwm
PFM	PPARG.H12INVIVO.0.P.B.pfm
Alignment	PPARG.H12INVIVO.0.P.B.words.tsv
Threshold to P-value map	PPARG.H12INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	PPARG.H12INVIVO.0.P.B_jaspar_format.txt
MEME format	PPARG.H12INVIVO.0.P.B_meme_format.meme
Transfac format	PPARG.H12INVIVO.0.P.B_transfac_format.txt
Homer format	PPARG.H12INVIVO.0.P.B_homer_format_0.001.txt PPARG.H12INVIVO.0.P.B_homer_format_0.0005.txt PPARG.H12INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	546.0	167.0	116.0	171.0
02	541.0	31.0	90.0	338.0
03	99.0	385.0	352.0	164.0
04	94.0	118.0	103.0	685.0
05	407.0	23.0	500.0	70.0
06	70.0	4.0	780.0	146.0
07	109.0	20.0	817.0	54.0
08	121.0	191.0	318.0	370.0
09	73.0	543.0	243.0	141.0
10	918.0	13.0	46.0	23.0
11	669.0	40.0	238.0	53.0
12	852.0	4.0	134.0	10.0
13	77.0	3.0	896.0	24.0
14	30.0	7.0	793.0	170.0
15	29.0	94.0	241.0	636.0
16	82.0	597.0	140.0	181.0
17	755.0	62.0	102.0	81.0

PFM

	A	C	G	T
01	0.546	0.167	0.116	0.171
02	0.541	0.031	0.09	0.338
03	0.099	0.385	0.352	0.164
04	0.094	0.118	0.103	0.685
05	0.407	0.023	0.5	0.07
06	0.07	0.004	0.78	0.146
07	0.109	0.02	0.817	0.054
08	0.121	0.191	0.318	0.37
09	0.073	0.543	0.243	0.141
10	0.918	0.013	0.046	0.023
11	0.669	0.04	0.238	0.053
12	0.852	0.004	0.134	0.01
13	0.077	0.003	0.896	0.024
14	0.03	0.007	0.793	0.17
15	0.029	0.094	0.241	0.636
16	0.082	0.597	0.14	0.181
17	0.755	0.062	0.102	0.081

PWM

	A	C	G	T
01	0.777	-0.4	-0.76	-0.377
02	0.768	-2.04	-1.01	0.3
03	-0.916	0.429	0.34	-0.418
04	-0.967	-0.743	-0.877	1.004
05	0.485	-2.32	0.69	-1.255
06	-1.255	-3.783	1.133	-0.533
07	-0.821	-2.45	1.179	-1.508
08	-0.718	-0.267	0.239	0.39
09	-1.215	0.772	-0.028	-0.567
10	1.296	-2.839	-1.663	-2.32
11	0.98	-1.797	-0.049	-1.526
12	1.221	-3.783	-0.618	-3.066
13	-1.162	-3.975	1.272	-2.281
14	-2.071	-3.362	1.15	-0.382
15	-2.103	-0.967	-0.036	0.93
16	-1.101	0.866	-0.574	-0.32
17	1.101	-1.374	-0.887	-1.113

Standard thresholds

P-value	Threshold
0.001	4.09371
0.0005	5.03551
0.0001	7.00546