DUXA.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	DUXA.H12INVITRO.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	14
Consensus	nTGATTARRTTRvn
GC content	29.71%
Information content (bits; total / per base)	15.891 / 1.135
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9524

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.882	0.881	0.809	0.817	0.774	0.784
Overall, 4 experiments	best	0.999	0.998	0.999	0.998	0.998	0.997
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.999	0.998	0.998	0.997
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.999	0.998	0.998	0.997
Non-Methyl HT-SELEX, 3 experiments	median	0.767	0.77	0.623	0.643	0.555	0.58
Non-Methyl HT-SELEX, 3 experiments	best	0.996	0.993	0.995	0.991	0.993	0.988

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.895	0.778	0.873	0.616
batch 2	0.63	0.266	0.811	0.533

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.H12INVITRO.0.SM.B.pcm
PWM	DUXA.H12INVITRO.0.SM.B.pwm
PFM	DUXA.H12INVITRO.0.SM.B.pfm
Alignment	DUXA.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	DUXA.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	DUXA.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	DUXA.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	DUXA.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	DUXA.H12INVITRO.0.SM.B_homer_format_0.001.txt DUXA.H12INVITRO.0.SM.B_homer_format_0.0005.txt DUXA.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1429.75	2958.75	2343.75	2791.75
02	340.25	407.25	68.25	8708.25
03	276.0	1.0	9247.0	0.0
04	9524.0	0.0	0.0	0.0
05	0.0	1.0	1.0	9522.0
06	2.0	36.0	23.0	9463.0
07	8592.0	53.0	868.0	11.0
08	5759.0	522.0	3230.0	13.0
09	4399.0	869.0	3808.0	448.0
10	6.0	11.0	20.0	9487.0
11	19.0	3046.0	13.0	6446.0
12	6938.0	423.0	1335.0	828.0
13	3550.75	1976.75	2832.75	1163.75
14	1796.0	2691.0	2830.0	2207.0

PFM

	A	C	G	T
01	0.15	0.311	0.246	0.293
02	0.036	0.043	0.007	0.914
03	0.029	0.0	0.971	0.0
04	1.0	0.0	0.0	0.0
05	0.0	0.0	0.0	1.0
06	0.0	0.004	0.002	0.994
07	0.902	0.006	0.091	0.001
08	0.605	0.055	0.339	0.001
09	0.462	0.091	0.4	0.047
10	0.001	0.001	0.002	0.996
11	0.002	0.32	0.001	0.677
12	0.728	0.044	0.14	0.087
13	0.373	0.208	0.297	0.122
14	0.189	0.283	0.297	0.232

PWM

	A	C	G	T
01	-0.509	0.217	-0.016	0.159
02	-1.94	-1.761	-3.52	1.296
03	-2.148	-6.585	1.356	-6.948
04	1.386	-6.948	-6.948	-6.948
05	-6.948	-6.585	-6.585	1.385
06	-6.32	-4.131	-4.546	1.379
07	1.283	-3.764	-1.007	-5.189
08	0.883	-1.514	0.305	-5.049
09	0.613	-1.006	0.469	-1.666
10	-5.661	-5.189	-4.672	1.382
11	-4.718	0.246	-5.049	0.995
12	1.069	-1.723	-0.578	-1.054
13	0.399	-0.186	0.174	-0.715
14	-0.282	0.122	0.173	-0.076

Standard thresholds

P-value	Threshold
0.001	0.43341
0.0005	2.13536
0.0001	5.66911