VENTX.H12INVIVO.1.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	VENTX.H12INVIVO.1.S.D
Gene (human)	VENTX (GeneCards)
Gene synonyms (human)	HPX42B, VENTX2
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	D

Motif length	18
Consensus	nnhdMATTTGCATAhdhd
GC content	32.53%
Information content (bits; total / per base)	15.662 / 0.87
Data sources	HT-SELEX
Aligned words	2479

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.744	0.677	0.694	0.641	0.643	0.608
Overall, 4 experiments	best	0.998	0.996	0.994	0.991	0.975	0.968
Methyl HT-SELEX, 1 experiments	median	0.761	0.694	0.709	0.654	0.656	0.619
Methyl HT-SELEX, 1 experiments	best	0.761	0.694	0.709	0.654	0.656	0.619
Non-Methyl HT-SELEX, 3 experiments	median	0.726	0.661	0.678	0.627	0.63	0.597
Non-Methyl HT-SELEX, 3 experiments	best	0.998	0.996	0.994	0.991	0.975	0.968

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.607	0.006	0.666	0.44
batch 2	0.533	0.027	0.519	0.304

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	VENTX {3.1.2.23} (TFClass)
TFClass ID	TFClass: 3.1.2.23.1
HGNC	HGNC:13639
MGI
EntrezGene (human)	GeneID:27287 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	VENTX_HUMAN
UniProt ID (mouse)
UniProt AC (human)	O95231 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

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

PCM	VENTX.H12INVIVO.1.S.D.pcm
PWM	VENTX.H12INVIVO.1.S.D.pwm
PFM	VENTX.H12INVIVO.1.S.D.pfm
Alignment	VENTX.H12INVIVO.1.S.D.words.tsv
Threshold to P-value map	VENTX.H12INVIVO.1.S.D.thr
Motif in other formats
JASPAR format	VENTX.H12INVIVO.1.S.D_jaspar_format.txt
MEME format	VENTX.H12INVIVO.1.S.D_meme_format.meme
Transfac format	VENTX.H12INVIVO.1.S.D_transfac_format.txt
Homer format	VENTX.H12INVIVO.1.S.D_homer_format_0.001.txt VENTX.H12INVIVO.1.S.D_homer_format_0.0005.txt VENTX.H12INVIVO.1.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	649.5	593.5	595.5	640.5
02	683.5	749.5	579.5	466.5
03	317.0	1046.0	315.0	801.0
04	540.0	151.0	510.0	1278.0
05	1505.0	578.0	223.0	173.0
06	2094.0	68.0	95.0	222.0
07	13.0	24.0	8.0	2434.0
08	575.0	9.0	3.0	1892.0
09	441.0	3.0	0.0	2035.0
10	21.0	7.0	2437.0	14.0
11	33.0	2414.0	15.0	17.0
12	2390.0	24.0	35.0	30.0
13	82.0	29.0	10.0	2358.0
14	2114.0	30.0	243.0	92.0
15	737.0	497.0	83.0	1162.0
16	424.0	246.0	891.0	918.0
17	340.5	1012.5	312.5	813.5
18	1230.25	297.25	379.25	572.25

PFM

	A	C	G	T
01	0.262	0.239	0.24	0.258
02	0.276	0.302	0.234	0.188
03	0.128	0.422	0.127	0.323
04	0.218	0.061	0.206	0.516
05	0.607	0.233	0.09	0.07
06	0.845	0.027	0.038	0.09
07	0.005	0.01	0.003	0.982
08	0.232	0.004	0.001	0.763
09	0.178	0.001	0.0	0.821
10	0.008	0.003	0.983	0.006
11	0.013	0.974	0.006	0.007
12	0.964	0.01	0.014	0.012
13	0.033	0.012	0.004	0.951
14	0.853	0.012	0.098	0.037
15	0.297	0.2	0.033	0.469
16	0.171	0.099	0.359	0.37
17	0.137	0.408	0.126	0.328
18	0.496	0.12	0.153	0.231

PWM

	A	C	G	T
01	0.047	-0.043	-0.04	0.033
02	0.098	0.19	-0.067	-0.283
03	-0.667	0.522	-0.674	0.256
04	-0.137	-1.402	-0.194	0.722
05	0.885	-0.07	-1.017	-1.268
06	1.215	-2.185	-1.858	-1.021
07	-3.727	-3.176	-4.134	1.366
08	-0.075	-4.039	-4.832	1.114
09	-0.339	-4.832	-5.763	1.187
10	-3.299	-4.24	1.367	-3.663
11	-2.878	1.357	-3.602	-3.49
12	1.347	-3.176	-2.823	-2.968
13	-2.002	-3.0	-3.951	1.334
14	1.225	-2.968	-0.931	-1.89
15	0.173	-0.22	-1.99	0.627
16	-0.378	-0.919	0.362	0.392
17	-0.596	0.49	-0.682	0.271
18	0.684	-0.731	-0.489	-0.079

Standard thresholds

P-value	Threshold
0.001	2.30891
0.0005	3.59281
0.0001	6.27566