OVOL2.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	OVOL2.H12INVIVO.0.PSM.A
Gene (human)	OVOL2 (GeneCards)
Gene synonyms (human)	ZNF339
Gene (mouse)	Ovol2
Gene synonyms (mouse)	Ovo2, Zfp339, Znf339
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	ndnvTAACGGWhn
GC content	41.62%
Information content (bits; total / per base)	13.182 / 1.014
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9714

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Mouse	1 (7)	0.96	0.972	0.923	0.944	0.91	0.933	3.735	4.007	463.854	482.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.998	0.996	0.996	0.993	0.989	0.985
Overall, 4 experiments	best	0.998	0.997	0.998	0.996	0.996	0.994
Methyl HT-SELEX, 2 experiments	median	0.997	0.994	0.994	0.99	0.965	0.961
Methyl HT-SELEX, 2 experiments	best	0.997	0.995	0.996	0.993	0.986	0.982
Non-Methyl HT-SELEX, 2 experiments	median	0.998	0.996	0.997	0.995	0.994	0.991
Non-Methyl HT-SELEX, 2 experiments	best	0.998	0.997	0.998	0.996	0.996	0.994

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.744	0.415	0.842	0.705

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	More than 3 adjacent zinc fingers {2.3.3} (TFClass)
TF subfamily	OVOL {2.3.3.17} (TFClass)
TFClass ID	TFClass: 2.3.3.17.2
HGNC	HGNC:15804
MGI	MGI:1338039
EntrezGene (human)	GeneID:58495 (SSTAR profile)
EntrezGene (mouse)	GeneID:107586 (SSTAR profile)
UniProt ID (human)	OVOL2_HUMAN
UniProt ID (mouse)	OVOL2_MOUSE
UniProt AC (human)	Q9BRP0 (TFClass)
UniProt AC (mouse)	Q8CIV7 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 1 mouse
HT-SELEX	2
Methyl-HT-SELEX	2

PCM	OVOL2.H12INVIVO.0.PSM.A.pcm
PWM	OVOL2.H12INVIVO.0.PSM.A.pwm
PFM	OVOL2.H12INVIVO.0.PSM.A.pfm
Alignment	OVOL2.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	OVOL2.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	OVOL2.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	OVOL2.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	OVOL2.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	OVOL2.H12INVIVO.0.PSM.A_homer_format_0.001.txt OVOL2.H12INVIVO.0.PSM.A_homer_format_0.0005.txt OVOL2.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2335.75	2200.75	2371.75	2805.75
02	4381.0	991.0	2452.0	1890.0
03	2277.0	2195.0	2312.0	2930.0
04	5324.0	1844.0	1788.0	758.0
05	6.0	36.0	7.0	9665.0
06	9714.0	0.0	0.0	0.0
07	9708.0	0.0	6.0	0.0
08	0.0	9714.0	0.0	0.0
09	0.0	0.0	9714.0	0.0
10	0.0	5.0	9689.0	20.0
11	3656.0	543.0	581.0	4934.0
12	4127.5	1366.5	1321.5	2898.5
13	2928.75	1938.75	1476.75	3369.75

PFM

	A	C	G	T
01	0.24	0.227	0.244	0.289
02	0.451	0.102	0.252	0.195
03	0.234	0.226	0.238	0.302
04	0.548	0.19	0.184	0.078
05	0.001	0.004	0.001	0.995
06	1.0	0.0	0.0	0.0
07	0.999	0.0	0.001	0.0
08	0.0	1.0	0.0	0.0
09	0.0	0.0	1.0	0.0
10	0.0	0.001	0.997	0.002
11	0.376	0.056	0.06	0.508
12	0.425	0.141	0.136	0.298
13	0.301	0.2	0.152	0.347

PWM

	A	C	G	T
01	-0.039	-0.098	-0.024	0.144
02	0.59	-0.895	0.01	-0.25
03	-0.064	-0.101	-0.049	0.188
04	0.784	-0.275	-0.306	-1.162
05	-5.68	-4.151	-5.566	1.381
06	1.386	-6.965	-6.965	-6.965
07	1.385	-6.965	-5.68	-6.965
08	-6.965	1.386	-6.965	-6.965
09	-6.965	-6.965	1.386	-6.965
10	-6.965	-5.809	1.383	-4.692
11	0.409	-1.495	-1.427	0.708
12	0.53	-0.574	-0.608	0.177
13	0.187	-0.225	-0.497	0.327

Standard thresholds

P-value	Threshold
0.001	1.16441
0.0005	2.28586
0.0001	7.67336