PAX3.H12INVIVO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PAX3.H12INVIVO.1.SM.B
Gene (human)	PAX3 (GeneCards)
Gene synonyms (human)	HUP2
Gene (mouse)	Pax3
Gene synonyms (mouse)	Pax-3
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	15
Consensus	vRWYvGTCACGSYhn
GC content	48.8%
Information content (bits; total / per base)	14.483 / 0.966
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9884

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)	0.843	0.86	0.763	0.8	0.79	0.81	2.838	3.093	201.796	259.444

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.788	0.772	0.782	0.768	0.762	0.75
Overall, 4 experiments	best	1.0	0.999	0.997	0.996	0.985	0.982
Methyl HT-SELEX, 1 experiments	median	1.0	0.999	0.997	0.996	0.972	0.968
Methyl HT-SELEX, 1 experiments	best	1.0	0.999	0.997	0.996	0.972	0.968
Non-Methyl HT-SELEX, 3 experiments	median	0.577	0.546	0.568	0.54	0.552	0.533
Non-Methyl HT-SELEX, 3 experiments	best	0.999	0.999	0.997	0.996	0.985	0.982

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.1.SM.B.pcm
PWM	PAX3.H12INVIVO.1.SM.B.pwm
PFM	PAX3.H12INVIVO.1.SM.B.pfm
Alignment	PAX3.H12INVIVO.1.SM.B.words.tsv
Threshold to P-value map	PAX3.H12INVIVO.1.SM.B.thr
Motif in other formats
JASPAR format	PAX3.H12INVIVO.1.SM.B_jaspar_format.txt
MEME format	PAX3.H12INVIVO.1.SM.B_meme_format.meme
Transfac format	PAX3.H12INVIVO.1.SM.B_transfac_format.txt
Homer format	PAX3.H12INVIVO.1.SM.B_homer_format_0.001.txt PAX3.H12INVIVO.1.SM.B_homer_format_0.0005.txt PAX3.H12INVIVO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	4449.25	1288.25	3009.25	1137.25
02	6454.75	956.75	1324.75	1147.75
03	1286.0	841.0	1021.0	6736.0
04	604.0	1477.0	596.0	7207.0
05	5302.0	1563.0	2431.0	588.0
06	195.0	37.0	9437.0	215.0
07	126.0	86.0	60.0	9612.0
08	54.0	9371.0	52.0	407.0
09	9211.0	112.0	525.0	36.0
10	88.0	9511.0	35.0	250.0
11	163.0	65.0	9591.0	65.0
12	78.0	5754.0	3957.0	95.0
13	875.0	1316.0	464.0	7229.0
14	2425.25	1861.25	1279.25	4318.25
15	3478.5	2108.5	2218.5	2078.5

PFM

	A	C	G	T
01	0.45	0.13	0.304	0.115
02	0.653	0.097	0.134	0.116
03	0.13	0.085	0.103	0.682
04	0.061	0.149	0.06	0.729
05	0.536	0.158	0.246	0.059
06	0.02	0.004	0.955	0.022
07	0.013	0.009	0.006	0.972
08	0.005	0.948	0.005	0.041
09	0.932	0.011	0.053	0.004
10	0.009	0.962	0.004	0.025
11	0.016	0.007	0.97	0.007
12	0.008	0.582	0.4	0.01
13	0.089	0.133	0.047	0.731
14	0.245	0.188	0.129	0.437
15	0.352	0.213	0.224	0.21

PWM

	A	C	G	T
01	0.588	-0.65	0.197	-0.775
02	0.96	-0.947	-0.623	-0.766
03	-0.652	-1.076	-0.883	1.002
04	-1.406	-0.514	-1.419	1.07
05	0.763	-0.457	-0.016	-1.433
06	-2.529	-4.142	1.339	-2.432
07	-2.959	-3.333	-3.681	1.358
08	-3.783	1.332	-3.819	-1.799
09	1.315	-3.074	-1.546	-4.168
10	-3.31	1.347	-4.194	-2.283
11	-2.706	-3.604	1.356	-3.604
12	-3.428	0.845	0.471	-3.236
13	-1.036	-0.629	-1.668	1.073
14	-0.019	-0.283	-0.657	0.558
15	0.342	-0.158	-0.108	-0.173

Standard thresholds

P-value	Threshold
0.001	3.01936
0.0005	4.19436
0.0001	6.64191