BARX2.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BARX2.H12INVITRO.0.SM.B
Gene (human)	BARX2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Barx2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	13
Consensus	nWWAATCATTAnn
GC content	22.35%
Information content (bits; total / per base)	15.164 / 1.166
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9727

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.998	0.996	0.997	0.994	0.991	0.987
Overall, 2 experiments	best	0.998	0.997	0.998	0.996	0.994	0.991
Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.998	0.996	0.994	0.991
Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.998	0.996	0.994	0.991
Non-Methyl HT-SELEX, 1 experiments	median	0.997	0.994	0.996	0.993	0.989	0.984
Non-Methyl HT-SELEX, 1 experiments	best	0.997	0.994	0.996	0.993	0.989	0.984

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.89	0.291	0.884	0.513
batch 2	0.889	0.743	0.891	0.67

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.H12INVITRO.0.SM.B.pcm
PWM	BARX2.H12INVITRO.0.SM.B.pwm
PFM	BARX2.H12INVITRO.0.SM.B.pfm
Alignment	BARX2.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	BARX2.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	BARX2.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	BARX2.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	BARX2.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	BARX2.H12INVITRO.0.SM.B_homer_format_0.001.txt BARX2.H12INVITRO.0.SM.B_homer_format_0.0005.txt BARX2.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3323.5	1612.5	2539.5	2251.5
02	4795.75	500.75	549.75	3880.75
03	5152.0	95.0	57.0	4423.0
04	9044.0	86.0	92.0	505.0
05	9427.0	138.0	101.0	61.0
06	27.0	2041.0	12.0	7647.0
07	403.0	9149.0	174.0	1.0
08	8935.0	0.0	792.0	0.0
09	0.0	5.0	2.0	9720.0
10	6.0	41.0	0.0	9680.0
11	9620.0	12.0	28.0	67.0
12	3155.25	1552.25	3001.25	2018.25
13	1619.75	3704.75	1979.75	2422.75

PFM

	A	C	G	T
01	0.342	0.166	0.261	0.231
02	0.493	0.051	0.057	0.399
03	0.53	0.01	0.006	0.455
04	0.93	0.009	0.009	0.052
05	0.969	0.014	0.01	0.006
06	0.003	0.21	0.001	0.786
07	0.041	0.941	0.018	0.0
08	0.919	0.0	0.081	0.0
09	0.0	0.001	0.0	0.999
10	0.001	0.004	0.0	0.995
11	0.989	0.001	0.003	0.007
12	0.324	0.16	0.309	0.207
13	0.167	0.381	0.204	0.249

PWM

	A	C	G	T
01	0.312	-0.41	0.043	-0.077
02	0.679	-1.577	-1.484	0.467
03	0.75	-3.22	-3.715	0.598
04	1.313	-3.317	-3.251	-1.568
05	1.354	-2.854	-3.16	-3.649
06	-4.42	-0.175	-5.137	1.145
07	-1.793	1.324	-2.625	-6.605
08	1.301	-6.966	-1.12	-6.966
09	-6.966	-5.81	-6.34	1.385
10	-5.682	-4.029	-6.966	1.381
11	1.375	-5.137	-4.386	-3.559
12	0.26	-0.448	0.21	-0.186
13	-0.406	0.421	-0.205	-0.004

Standard thresholds

P-value	Threshold
0.001	1.47816
0.0005	3.02361
0.0001	6.187235