PPARG.H12INVITRO.0.P.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PPARG.H12INVITRO.0.P.D
Gene (human)	PPARG (GeneCards)
Gene synonyms (human)	NR1C3
Gene (mouse)	Pparg
Gene synonyms (mouse)	Nr1c3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	17
Consensus	hWbYRGGbbARAGGKbR
GC content	49.31%
Information content (bits; total / per base)	12.639 / 0.743
Data sources	ChIP-Seq
Aligned words	999

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)	0.89	0.93	0.823	0.889	0.873	0.915	3.355	4.213	202.961	336.495
Mouse	67 (374)	0.871	0.972	0.799	0.938	0.866	0.968	3.375	4.822	186.145	336.347

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.062	5.612	0.22	0.169

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.0.P.D.pcm
PWM	PPARG.H12INVITRO.0.P.D.pwm
PFM	PPARG.H12INVITRO.0.P.D.pfm
Alignment	PPARG.H12INVITRO.0.P.D.words.tsv
Threshold to P-value map	PPARG.H12INVITRO.0.P.D.thr
Motif in other formats
JASPAR format	PPARG.H12INVITRO.0.P.D_jaspar_format.txt
MEME format	PPARG.H12INVITRO.0.P.D_meme_format.meme
Transfac format	PPARG.H12INVITRO.0.P.D_transfac_format.txt
Homer format	PPARG.H12INVITRO.0.P.D_homer_format_0.001.txt PPARG.H12INVITRO.0.P.D_homer_format_0.0005.txt PPARG.H12INVITRO.0.P.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	517.0	207.0	120.0	155.0
02	576.0	34.0	120.0	269.0
03	82.0	411.0	355.0	151.0
04	76.0	149.0	85.0	689.0
05	479.0	25.0	447.0	48.0
06	98.0	2.0	788.0	111.0
07	136.0	14.0	823.0	26.0
08	105.0	191.0	356.0	347.0
09	103.0	571.0	209.0	116.0
10	913.0	16.0	52.0	18.0
11	667.0	40.0	252.0	40.0
12	855.0	4.0	137.0	3.0
13	85.0	5.0	890.0	19.0
14	40.0	10.0	811.0	138.0
15	47.0	126.0	183.0	643.0
16	76.0	564.0	194.0	165.0
17	720.0	81.0	102.0	96.0

PFM

	A	C	G	T
01	0.518	0.207	0.12	0.155
02	0.577	0.034	0.12	0.269
03	0.082	0.411	0.355	0.151
04	0.076	0.149	0.085	0.69
05	0.479	0.025	0.447	0.048
06	0.098	0.002	0.789	0.111
07	0.136	0.014	0.824	0.026
08	0.105	0.191	0.356	0.347
09	0.103	0.572	0.209	0.116
10	0.914	0.016	0.052	0.018
11	0.668	0.04	0.252	0.04
12	0.856	0.004	0.137	0.003
13	0.085	0.005	0.891	0.019
14	0.04	0.01	0.812	0.138
15	0.047	0.126	0.183	0.644
16	0.076	0.565	0.194	0.165
17	0.721	0.081	0.102	0.096

PWM

	A	C	G	T
01	0.724	-0.186	-0.726	-0.473
02	0.832	-1.951	-0.726	0.074
03	-1.1	0.495	0.35	-0.499
04	-1.174	-0.512	-1.065	1.01
05	0.648	-2.242	0.579	-1.621
06	-0.925	-4.212	1.144	-0.802
07	-0.602	-2.772	1.188	-2.205
08	-0.857	-0.266	0.352	0.327
09	-0.876	0.823	-0.177	-0.759
10	1.291	-2.652	-1.543	-2.545
11	0.978	-1.796	0.009	-1.796
12	1.226	-3.782	-0.595	-3.974
13	-1.065	-3.621	1.266	-2.496
14	-1.796	-3.065	1.173	-0.588
15	-1.641	-0.677	-0.308	0.941
16	-1.174	0.811	-0.251	-0.411
17	1.054	-1.112	-0.886	-0.945

Standard thresholds

P-value	Threshold
0.001	4.08681
0.0005	5.03301
0.0001	7.00876