ARX.H12INVIVO.0.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ARX.H12INVIVO.0.S.D
Gene (human)	ARX (GeneCards)
Gene synonyms (human)
Gene (mouse)	Arx
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	18
Consensus	dhTAATYWAATTARbnnn
GC content	24.25%
Information content (bits; total / per base)	17.717 / 0.984
Data sources	HT-SELEX
Aligned words	6919

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.999	0.997	0.995	0.993	0.977	0.968
Overall, 6 experiments	best	0.999	0.998	0.998	0.997	0.992	0.99
Methyl HT-SELEX, 1 experiments	median	0.969	0.948	0.951	0.924	0.923	0.891
Methyl HT-SELEX, 1 experiments	best	0.969	0.948	0.951	0.924	0.923	0.891
Non-Methyl HT-SELEX, 5 experiments	median	0.999	0.997	0.998	0.997	0.988	0.986
Non-Methyl HT-SELEX, 5 experiments	best	0.999	0.998	0.998	0.997	0.992	0.99

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.769	0.52	0.781	0.573

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	Paired-related HD {3.1.3} (TFClass)
TF subfamily	ARX {3.1.3.3} (TFClass)
TFClass ID	TFClass: 3.1.3.3.1
HGNC	HGNC:18060
MGI	MGI:1097716
EntrezGene (human)	GeneID:170302 (SSTAR profile)
EntrezGene (mouse)	GeneID:11878 (SSTAR profile)
UniProt ID (human)	ARX_HUMAN
UniProt ID (mouse)	ARX_MOUSE
UniProt AC (human)	Q96QS3 (TFClass)
UniProt AC (mouse)	O35085 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	ARX.H12INVIVO.0.S.D.pcm
PWM	ARX.H12INVIVO.0.S.D.pwm
PFM	ARX.H12INVIVO.0.S.D.pfm
Alignment	ARX.H12INVIVO.0.S.D.words.tsv
Threshold to P-value map	ARX.H12INVIVO.0.S.D.thr
Motif in other formats
JASPAR format	ARX.H12INVIVO.0.S.D_jaspar_format.txt
MEME format	ARX.H12INVIVO.0.S.D_meme_format.meme
Transfac format	ARX.H12INVIVO.0.S.D_transfac_format.txt
Homer format	ARX.H12INVIVO.0.S.D_homer_format_0.001.txt ARX.H12INVIVO.0.S.D_homer_format_0.0005.txt ARX.H12INVIVO.0.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2974.0	1128.0	1373.0	1444.0
02	1015.75	1833.75	986.75	3082.75
03	274.0	92.0	61.0	6492.0
04	6435.0	61.0	338.0	85.0
05	6484.0	111.0	300.0	24.0
06	232.0	422.0	255.0	6010.0
07	5.0	3481.0	188.0	3245.0
08	1133.0	1033.0	377.0	4376.0
09	5788.0	5.0	1126.0	0.0
10	6914.0	0.0	5.0	0.0
11	0.0	0.0	0.0	6919.0
12	0.0	19.0	0.0	6900.0
13	6805.0	2.0	105.0	7.0
14	2507.0	607.0	3733.0	72.0
15	624.0	2340.0	1165.0	2790.0
16	1252.0	1587.0	1702.0	2378.0
17	2574.5	1520.5	1318.5	1505.5
18	2242.75	1482.75	1443.75	1749.75

PFM

	A	C	G	T
01	0.43	0.163	0.198	0.209
02	0.147	0.265	0.143	0.446
03	0.04	0.013	0.009	0.938
04	0.93	0.009	0.049	0.012
05	0.937	0.016	0.043	0.003
06	0.034	0.061	0.037	0.869
07	0.001	0.503	0.027	0.469
08	0.164	0.149	0.054	0.632
09	0.837	0.001	0.163	0.0
10	0.999	0.0	0.001	0.0
11	0.0	0.0	0.0	1.0
12	0.0	0.003	0.0	0.997
13	0.984	0.0	0.015	0.001
14	0.362	0.088	0.54	0.01
15	0.09	0.338	0.168	0.403
16	0.181	0.229	0.246	0.344
17	0.372	0.22	0.191	0.218
18	0.324	0.214	0.209	0.253

PWM

	A	C	G	T
01	0.541	-0.427	-0.231	-0.18
02	-0.531	0.058	-0.56	0.577
03	-1.836	-2.911	-3.311	1.322
04	1.313	-3.311	-1.627	-2.989
05	1.32	-2.728	-1.746	-4.191
06	-2.001	-1.407	-1.907	1.245
07	-5.481	0.699	-2.209	0.629
08	-0.422	-0.515	-1.519	0.927
09	1.207	-5.481	-0.429	-6.664
10	1.385	-6.664	-5.481	-6.664
11	-6.664	-6.664	-6.664	1.385
12	-6.664	-4.403	-6.664	1.383
13	1.369	-6.019	-2.782	-5.237
14	0.371	-1.045	0.769	-3.15
15	-1.017	0.302	-0.395	0.478
16	-0.323	-0.086	-0.016	0.318
17	0.397	-0.129	-0.271	-0.139
18	0.259	-0.154	-0.18	0.011

Standard thresholds

P-value	Threshold
0.001	-0.18749
0.0005	1.51596
0.0001	5.02026