PPARG.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PPARG.H12RSNP.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	vWvYRGGbSARAGKKbR
GC content	52.49%
Information content (bits; total / per base)	12.698 / 0.747
Data sources	ChIP-Seq
Aligned words	993

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)	0.873	0.913	0.807	0.862	0.86	0.912	3.297	4.097	181.926	308.745
Mouse	67 (374)	0.857	0.961	0.777	0.922	0.861	0.964	3.371	4.721	167.645	318.328

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.786	7.168	0.219	0.16

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.H12RSNP.0.P.B.pcm
PWM	PPARG.H12RSNP.0.P.B.pwm
PFM	PPARG.H12RSNP.0.P.B.pfm
Alignment	PPARG.H12RSNP.0.P.B.words.tsv
Threshold to P-value map	PPARG.H12RSNP.0.P.B.thr
Motif in other formats
JASPAR format	PPARG.H12RSNP.0.P.B_jaspar_format.txt
MEME format	PPARG.H12RSNP.0.P.B_meme_format.meme
Transfac format	PPARG.H12RSNP.0.P.B_transfac_format.txt
Homer format	PPARG.H12RSNP.0.P.B_homer_format_0.001.txt PPARG.H12RSNP.0.P.B_homer_format_0.0005.txt PPARG.H12RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	490.0	242.0	131.0	130.0
02	601.0	22.0	90.0	280.0
03	80.0	410.0	436.0	67.0
04	53.0	125.0	108.0	707.0
05	476.0	28.0	475.0	14.0
06	89.0	2.0	807.0	95.0
07	134.0	28.0	819.0	12.0
08	141.0	178.0	401.0	273.0
09	75.0	621.0	224.0	73.0
10	925.0	17.0	36.0	15.0
11	538.0	53.0	346.0	56.0
12	823.0	4.0	163.0	3.0
13	79.0	4.0	895.0	15.0
14	70.0	14.0	782.0	127.0
15	39.0	120.0	304.0	530.0
16	91.0	529.0	212.0	161.0
17	658.0	92.0	143.0	100.0

PFM

	A	C	G	T
01	0.493	0.244	0.132	0.131
02	0.605	0.022	0.091	0.282
03	0.081	0.413	0.439	0.067
04	0.053	0.126	0.109	0.712
05	0.479	0.028	0.478	0.014
06	0.09	0.002	0.813	0.096
07	0.135	0.028	0.825	0.012
08	0.142	0.179	0.404	0.275
09	0.076	0.625	0.226	0.074
10	0.932	0.017	0.036	0.015
11	0.542	0.053	0.348	0.056
12	0.829	0.004	0.164	0.003
13	0.08	0.004	0.901	0.015
14	0.07	0.014	0.788	0.128
15	0.039	0.121	0.306	0.534
16	0.092	0.533	0.213	0.162
17	0.663	0.093	0.144	0.101

PWM

	A	C	G	T
01	0.677	-0.025	-0.633	-0.641
02	0.88	-2.355	-1.003	0.12
03	-1.118	0.499	0.56	-1.291
04	-1.519	-0.679	-0.823	1.042
05	0.648	-2.129	0.646	-2.766
06	-1.014	-4.206	1.174	-0.949
07	-0.611	-2.129	1.189	-2.902
08	-0.56	-0.33	0.477	0.094
09	-1.181	0.913	-0.102	-1.208
10	1.31	-2.591	-1.891	-2.704
11	0.77	-1.519	0.33	-1.466
12	1.194	-3.776	-0.417	-3.968
13	-1.13	-3.776	1.277	-2.704
14	-1.249	-2.766	1.143	-0.664
15	-1.815	-0.72	0.201	0.755
16	-0.992	0.753	-0.157	-0.429
17	0.97	-0.981	-0.547	-0.899

Standard thresholds

P-value	Threshold
0.001	4.05326
0.0005	5.01471
0.0001	7.01616