DUXA.H12RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	DUXA.H12RSNP.0.SM.B
Gene (human)	DUXA (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	18
Consensus	nnvbTGATTARvTTAdnn
GC content	30.89%
Information content (bits; total / per base)	17.572 / 0.976
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	782

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.842	0.846	0.745	0.753	0.64	0.662
Overall, 4 experiments	best	0.999	0.998	0.998	0.997	0.997	0.995
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.998	0.997	0.997	0.995
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.998	0.997	0.997	0.995
Non-Methyl HT-SELEX, 3 experiments	median	0.7	0.716	0.578	0.606	0.529	0.557
Non-Methyl HT-SELEX, 3 experiments	best	0.983	0.975	0.911	0.901	0.752	0.768

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.911	0.806	0.892	0.62
batch 2	0.652	0.288	0.805	0.561

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	DUX {3.1.3.7} (TFClass)
TFClass ID	TFClass: 3.1.3.7.1
HGNC	HGNC:32179
MGI
EntrezGene (human)	GeneID:503835 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	DUXA_HUMAN
UniProt ID (mouse)
UniProt AC (human)	A6NLW8 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

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

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

PCM

	A	C	G	T
01	242.0	144.0	191.0	205.0
02	245.5	197.5	200.5	138.5
03	293.0	164.0	219.0	106.0
04	83.0	303.0	168.0	228.0
05	16.0	6.0	4.0	756.0
06	21.0	2.0	758.0	1.0
07	780.0	0.0	2.0	0.0
08	0.0	1.0	0.0	781.0
09	0.0	0.0	1.0	781.0
10	768.0	0.0	8.0	6.0
11	475.0	14.0	293.0	0.0
12	378.0	118.0	255.0	31.0
13	0.0	9.0	8.0	765.0
14	7.0	167.0	4.0	604.0
15	705.0	5.0	38.0	34.0
16	338.0	105.0	229.0	110.0
17	132.5	217.5	163.5	268.5
18	125.25	171.25	182.25	303.25

PFM

	A	C	G	T
01	0.309	0.184	0.244	0.262
02	0.314	0.253	0.256	0.177
03	0.375	0.21	0.28	0.136
04	0.106	0.387	0.215	0.292
05	0.02	0.008	0.005	0.967
06	0.027	0.003	0.969	0.001
07	0.997	0.0	0.003	0.0
08	0.0	0.001	0.0	0.999
09	0.0	0.0	0.001	0.999
10	0.982	0.0	0.01	0.008
11	0.607	0.018	0.375	0.0
12	0.483	0.151	0.326	0.04
13	0.0	0.012	0.01	0.978
14	0.009	0.214	0.005	0.772
15	0.902	0.006	0.049	0.043
16	0.432	0.134	0.293	0.141
17	0.169	0.278	0.209	0.343
18	0.16	0.219	0.233	0.388

PWM

	A	C	G	T
01	0.212	-0.303	-0.023	0.047
02	0.226	0.01	0.025	-0.341
03	0.402	-0.174	0.113	-0.605
04	-0.845	0.435	-0.15	0.153
05	-2.412	-3.247	-3.55	1.346
06	-2.163	-3.985	1.349	-4.304
07	1.377	-4.774	-3.985	-4.774
08	-4.774	-4.304	-4.774	1.379
09	-4.774	-4.774	-4.304	1.379
10	1.362	-4.774	-3.015	-3.247
11	0.883	-2.533	0.402	-4.774
12	0.655	-0.499	0.264	-1.798
13	-4.774	-2.917	-3.015	1.358
14	-3.125	-0.156	-3.55	1.122
15	1.277	-3.387	-1.604	-1.71
16	0.544	-0.614	0.157	-0.569
17	-0.385	0.106	-0.177	0.315
18	-0.441	-0.131	-0.07	0.436

Standard thresholds

P-value	Threshold
0.001	0.63986
0.0005	2.16801
0.0001	5.28941