BARX2.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BARX2.H12INVIVO.0.SM.D
Gene (human)	BARX2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Barx2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	13
Consensus	dWAATCATTAnbn
GC content	25.34%
Information content (bits; total / per base)	14.86 / 1.143
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9984

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.998	0.996	0.996	0.994	0.99	0.986
Overall, 2 experiments	best	0.998	0.997	0.997	0.995	0.992	0.988
Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.997	0.995	0.992	0.988
Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.997	0.995	0.992	0.988
Non-Methyl HT-SELEX, 1 experiments	median	0.997	0.995	0.996	0.993	0.989	0.984
Non-Methyl HT-SELEX, 1 experiments	best	0.997	0.995	0.996	0.993	0.989	0.984

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.893	0.26	0.899	0.564
batch 2	0.892	0.746	0.891	0.674

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	BARX {3.1.2.2} (TFClass)
TFClass ID	TFClass: 3.1.2.2.2
HGNC	HGNC:956
MGI	MGI:109617
EntrezGene (human)	GeneID:8538 (SSTAR profile)
EntrezGene (mouse)	GeneID:12023 (SSTAR profile)
UniProt ID (human)	BARX2_HUMAN
UniProt ID (mouse)	BARX2_MOUSE
UniProt AC (human)	Q9UMQ3 (TFClass)
UniProt AC (mouse)	O08686 (TFClass)
GRECO-DB-TF	yes

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

PCM	BARX2.H12INVIVO.0.SM.D.pcm
PWM	BARX2.H12INVIVO.0.SM.D.pwm
PFM	BARX2.H12INVIVO.0.SM.D.pfm
Alignment	BARX2.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	BARX2.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	BARX2.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	BARX2.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	BARX2.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	BARX2.H12INVIVO.0.SM.D_homer_format_0.001.txt BARX2.H12INVIVO.0.SM.D_homer_format_0.0005.txt BARX2.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	4763.75	774.75	782.75	3662.75
02	5804.75	218.75	192.75	3767.75
03	9505.0	53.0	54.0	372.0
04	9675.0	131.0	70.0	108.0
05	14.0	3544.0	8.0	6418.0
06	531.0	8906.0	547.0	0.0
07	9609.0	4.0	371.0	0.0
08	1.0	3.0	0.0	9980.0
09	1.0	12.0	0.0	9971.0
10	9855.0	0.0	7.0	122.0
11	3206.0	2023.0	2898.0	1857.0
12	1245.0	4102.0	2343.0	2294.0
13	1795.25	2890.25	2950.25	2348.25

PFM

	A	C	G	T
01	0.477	0.078	0.078	0.367
02	0.581	0.022	0.019	0.377
03	0.952	0.005	0.005	0.037
04	0.969	0.013	0.007	0.011
05	0.001	0.355	0.001	0.643
06	0.053	0.892	0.055	0.0
07	0.962	0.0	0.037	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.001	0.0	0.999
10	0.987	0.0	0.001	0.012
11	0.321	0.203	0.29	0.186
12	0.125	0.411	0.235	0.23
13	0.18	0.289	0.295	0.235

PWM

	A	C	G	T
01	0.646	-1.168	-1.158	0.383
02	0.843	-2.425	-2.55	0.411
03	1.336	-3.811	-3.793	-1.898
04	1.354	-2.931	-3.543	-3.12
05	-5.032	0.35	-5.491	0.944
06	-1.544	1.271	-1.515	-6.99
07	1.347	-5.982	-1.901	-6.99
08	-6.629	-6.155	-6.99	1.385
09	-6.629	-5.163	-6.99	1.384
10	1.373	-6.99	-5.593	-3.001
11	0.25	-0.21	0.149	-0.295
12	-0.695	0.496	-0.063	-0.084
13	-0.329	0.147	0.167	-0.061

Standard thresholds

P-value	Threshold
0.001	1.49441
0.0005	3.14351
0.0001	6.336775