PAX3.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PAX3.H12INVIVO.0.PS.A
Gene (human)	PAX3 (GeneCards)
Gene synonyms (human)	HUP2
Gene (mouse)	Pax3
Gene synonyms (mouse)	Pax-3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	14
Consensus	hdhdGTCAYGSYbv
GC content	49.31%
Information content (bits; total / per base)	10.482 / 0.749
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1001

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	6 (39)	0.865	0.895	0.783	0.824	0.834	0.864	2.947	3.299	282.921	348.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.755	0.752	0.743	0.741	0.708	0.707
Overall, 4 experiments	best	0.997	0.995	0.988	0.982	0.964	0.953
Methyl HT-SELEX, 1 experiments	median	0.997	0.995	0.983	0.978	0.92	0.912
Methyl HT-SELEX, 1 experiments	best	0.997	0.995	0.983	0.978	0.92	0.912
Non-Methyl HT-SELEX, 3 experiments	median	0.514	0.51	0.503	0.505	0.496	0.501
Non-Methyl HT-SELEX, 3 experiments	best	0.996	0.993	0.988	0.982	0.964	0.953

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Paired box factors {3.2} (TFClass)
TF family	PD+HD {3.2.1} (TFClass)
TF subfamily	PAX3-like {3.2.1.1} (TFClass)
TFClass ID	TFClass: 3.2.1.1.1
HGNC	HGNC:8617
MGI	MGI:97487
EntrezGene (human)	GeneID:5077 (SSTAR profile)
EntrezGene (mouse)	GeneID:18505 (SSTAR profile)
UniProt ID (human)	PAX3_HUMAN
UniProt ID (mouse)	PAX3_MOUSE
UniProt AC (human)	P23760 (TFClass)
UniProt AC (mouse)	P24610 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 6 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	PAX3.H12INVIVO.0.PS.A.pcm
PWM	PAX3.H12INVIVO.0.PS.A.pwm
PFM	PAX3.H12INVIVO.0.PS.A.pfm
Alignment	PAX3.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	PAX3.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	PAX3.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	PAX3.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	PAX3.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	PAX3.H12INVIVO.0.PS.A_homer_format_0.001.txt PAX3.H12INVIVO.0.PS.A_homer_format_0.0005.txt PAX3.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	420.0	223.0	155.0	203.0
02	219.0	113.0	177.0	492.0
03	272.0	190.0	47.0	492.0
04	309.0	81.0	217.0	394.0
05	5.0	4.0	677.0	315.0
06	56.0	101.0	31.0	813.0
07	2.0	983.0	1.0	15.0
08	983.0	7.0	5.0	6.0
09	22.0	557.0	30.0	392.0
10	157.0	6.0	831.0	7.0
11	3.0	460.0	533.0	5.0
12	129.0	169.0	28.0	675.0
13	47.0	281.0	329.0	344.0
14	181.0	350.0	325.0	145.0

PFM

	A	C	G	T
01	0.42	0.223	0.155	0.203
02	0.219	0.113	0.177	0.492
03	0.272	0.19	0.047	0.492
04	0.309	0.081	0.217	0.394
05	0.005	0.004	0.676	0.315
06	0.056	0.101	0.031	0.812
07	0.002	0.982	0.001	0.015
08	0.982	0.007	0.005	0.006
09	0.022	0.556	0.03	0.392
10	0.157	0.006	0.83	0.007
11	0.003	0.46	0.532	0.005
12	0.129	0.169	0.028	0.674
13	0.047	0.281	0.329	0.344
14	0.181	0.35	0.325	0.145

PWM

	A	C	G	T
01	0.515	-0.114	-0.475	-0.208
02	-0.132	-0.787	-0.343	0.673
03	0.083	-0.273	-1.643	0.673
04	0.21	-1.114	-0.142	0.451
05	-3.623	-3.784	0.991	0.229
06	-1.474	-0.897	-2.041	1.174
07	-4.214	1.363	-4.526	-2.712
08	1.363	-3.363	-3.623	-3.485
09	-2.363	0.796	-2.072	0.446
10	-0.462	-3.485	1.195	-3.363
11	-3.976	0.606	0.752	-3.623
12	-0.656	-0.389	-2.137	0.988
13	-1.643	0.115	0.272	0.316
14	-0.321	0.334	0.26	-0.541

Standard thresholds

P-value	Threshold
0.001	4.66466
0.0005	5.61051
0.0001	7.438615