DUXA.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	DUXA.H12INVIVO.0.SM.D
Gene (human)	DUXA (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	14
Consensus	nTGATTARRTTRvn
GC content	29.69%
Information content (bits; total / per base)	16.14 / 1.153
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9624

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.881	0.881	0.808	0.816	0.773	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	0.765	0.769	0.621	0.641	0.554	0.579
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	0.893	0.779	0.876	0.622
batch 2	0.641	0.278	0.812	0.527

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

PCM

	A	C	G	T
01	1544.0	2962.0	2346.0	2772.0
02	286.0	386.0	39.0	8913.0
03	233.0	0.0	9391.0	0.0
04	9624.0	0.0	0.0	0.0
05	0.0	1.0	1.0	9622.0
06	4.0	31.0	18.0	9571.0
07	8748.0	41.0	831.0	4.0
08	5860.0	498.0	3259.0	7.0
09	4234.0	945.0	4059.0	386.0
10	8.0	5.0	11.0	9600.0
11	7.0	3007.0	7.0	6603.0
12	7126.0	395.0	1281.0	822.0
13	3773.5	1913.5	2848.5	1088.5
14	1761.5	2818.5	2912.5	2131.5

PFM

	A	C	G	T
01	0.16	0.308	0.244	0.288
02	0.03	0.04	0.004	0.926
03	0.024	0.0	0.976	0.0
04	1.0	0.0	0.0	0.0
05	0.0	0.0	0.0	1.0
06	0.0	0.003	0.002	0.994
07	0.909	0.004	0.086	0.0
08	0.609	0.052	0.339	0.001
09	0.44	0.098	0.422	0.04
10	0.001	0.001	0.001	0.998
11	0.001	0.312	0.001	0.686
12	0.74	0.041	0.133	0.085
13	0.392	0.199	0.296	0.113
14	0.183	0.293	0.303	0.221

PWM

	A	C	G	T
01	-0.443	0.208	-0.025	0.141
02	-2.123	-1.825	-4.066	1.309
03	-2.326	-6.957	1.361	-6.957
04	1.386	-6.957	-6.957	-6.957
05	-6.957	-6.595	-6.595	1.385
06	-5.947	-4.281	-4.776	1.38
07	1.29	-4.019	-1.061	-5.947
08	0.89	-1.571	0.303	-5.557
09	0.565	-0.933	0.523	-1.825
10	-5.455	-5.8	-5.199	1.383
11	-5.557	0.223	-5.557	1.009
12	1.085	-1.802	-0.629	-1.072
13	0.45	-0.229	0.169	-0.792
14	-0.311	0.158	0.191	-0.121

Standard thresholds

P-value	Threshold
0.001	0.00406
0.0005	1.77276
0.0001	5.41613