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

Motif	PPARD.H12INVIVO.0.PSM.A
Gene (human)	PPARD (GeneCards)
Gene synonyms (human)	NR1C2, PPARB
Gene (mouse)	Ppard
Gene synonyms (mouse)	Nr1c2, Pparb
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	15
Consensus	bWRGGbSARAGKKYR
GC content	51.9%
Information content (bits; total / per base)	12.651 / 0.843
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1002

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
Mouse	2 (12)	0.856	0.884	0.785	0.835	0.852	0.886	3.558	4.134	158.463	213.42

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.954	0.95	0.768	0.782	0.644	0.671
Overall, 2 experiments	best	0.967	0.962	0.792	0.801	0.661	0.686
Methyl HT-SELEX, 1 experiments	median	0.967	0.962	0.792	0.801	0.661	0.686
Methyl HT-SELEX, 1 experiments	best	0.967	0.962	0.792	0.801	0.661	0.686
Non-Methyl HT-SELEX, 1 experiments	median	0.941	0.939	0.745	0.763	0.626	0.657
Non-Methyl HT-SELEX, 1 experiments	best	0.941	0.939	0.745	0.763	0.626	0.657

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: 2.1.2.5.2
HGNC	HGNC:9235
MGI	MGI:101884
EntrezGene (human)	GeneID:5467 (SSTAR profile)
EntrezGene (mouse)	GeneID:19015 (SSTAR profile)
UniProt ID (human)	PPARD_HUMAN
UniProt ID (mouse)	PPARD_MOUSE
UniProt AC (human)	Q03181 (TFClass)
UniProt AC (mouse)	P35396 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

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

PCM

	A	C	G	T
01	107.0	393.0	374.0	128.0
02	111.0	105.0	88.0	698.0
03	495.0	21.0	456.0	30.0
04	78.0	7.0	809.0	108.0
05	111.0	16.0	838.0	37.0
06	121.0	157.0	363.0	361.0
07	60.0	554.0	279.0	109.0
08	941.0	15.0	33.0	13.0
09	751.0	33.0	185.0	33.0
10	879.0	1.0	114.0	8.0
11	65.0	5.0	914.0	18.0
12	38.0	11.0	761.0	192.0
13	42.0	92.0	242.0	626.0
14	73.0	638.0	140.0	151.0
15	763.0	70.0	86.0	83.0

PFM

	A	C	G	T
01	0.107	0.392	0.373	0.128
02	0.111	0.105	0.088	0.697
03	0.494	0.021	0.455	0.03
04	0.078	0.007	0.807	0.108
05	0.111	0.016	0.836	0.037
06	0.121	0.157	0.362	0.36
07	0.06	0.553	0.278	0.109
08	0.939	0.015	0.033	0.013
09	0.75	0.033	0.185	0.033
10	0.877	0.001	0.114	0.008
11	0.065	0.005	0.912	0.018
12	0.038	0.011	0.759	0.192
13	0.042	0.092	0.242	0.625
14	0.073	0.637	0.14	0.151
15	0.761	0.07	0.086	0.083

PWM

	A	C	G	T
01	-0.841	0.448	0.399	-0.665
02	-0.805	-0.86	-1.034	1.02
03	0.678	-2.407	0.596	-2.073
04	-1.152	-3.364	1.168	-0.832
05	-0.805	-2.655	1.203	-1.874
06	-0.72	-0.463	0.369	0.363
07	-1.408	0.79	0.107	-0.823
08	1.318	-2.713	-1.983	-2.841
09	1.093	-1.983	-0.301	-1.983
10	1.25	-4.527	-0.779	-3.255
11	-1.33	-3.624	1.289	-2.548
12	-1.848	-2.987	1.107	-0.264
13	-1.752	-0.99	-0.034	0.912
14	-1.216	0.931	-0.576	-0.502
15	1.109	-1.257	-1.056	-1.091

Standard thresholds

P-value	Threshold
0.001	4.05801
0.0005	5.01636
0.0001	7.01771