OVOL2.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	OVOL2.H12RSNP.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	14
Consensus	ndnRTAACGGThhn
GC content	41.85%
Information content (bits; total / per base)	15.079 / 1.077
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	6885

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)	0.836	0.86	0.821	0.845	0.885	0.912	3.589	3.885	409.523	433.0

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.997	0.995	0.996	0.993	0.987	0.983
Overall, 4 experiments	best	0.999	0.998	0.998	0.997	0.997	0.996
Methyl HT-SELEX, 2 experiments	median	0.997	0.994	0.994	0.99	0.958	0.954
Methyl HT-SELEX, 2 experiments	best	0.998	0.997	0.997	0.995	0.986	0.982
Non-Methyl HT-SELEX, 2 experiments	median	0.998	0.996	0.997	0.994	0.993	0.989
Non-Methyl HT-SELEX, 2 experiments	best	0.999	0.998	0.998	0.997	0.997	0.996

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.721	0.439	0.871	0.684

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.H12RSNP.0.PSM.A.pcm
PWM	OVOL2.H12RSNP.0.PSM.A.pwm
PFM	OVOL2.H12RSNP.0.PSM.A.pfm
Alignment	OVOL2.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	OVOL2.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	OVOL2.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	OVOL2.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	OVOL2.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	OVOL2.H12RSNP.0.PSM.A_homer_format_0.001.txt OVOL2.H12RSNP.0.PSM.A_homer_format_0.0005.txt OVOL2.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1593.75	1780.75	1870.75	1639.75
02	3314.0	494.0	2049.0	1028.0
03	1587.0	1895.0	1681.0	1722.0
04	4774.0	954.0	1043.0	114.0
05	0.0	0.0	0.0	6885.0
06	6885.0	0.0	0.0	0.0
07	6885.0	0.0	0.0	0.0
08	0.0	6885.0	0.0	0.0
09	0.0	0.0	6885.0	0.0
10	0.0	0.0	6885.0	0.0
11	633.0	0.0	19.0	6233.0
12	2615.0	1521.0	282.0	2467.0
13	1589.25	2428.25	304.25	2563.25
14	1632.5	1794.5	1567.5	1890.5

PFM

	A	C	G	T
01	0.231	0.259	0.272	0.238
02	0.481	0.072	0.298	0.149
03	0.231	0.275	0.244	0.25
04	0.693	0.139	0.151	0.017
05	0.0	0.0	0.0	1.0
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	1.0	0.0	0.0
09	0.0	0.0	1.0	0.0
10	0.0	0.0	1.0	0.0
11	0.092	0.0	0.003	0.905
12	0.38	0.221	0.041	0.358
13	0.231	0.353	0.044	0.372
14	0.237	0.261	0.228	0.275

PWM

	A	C	G	T
01	-0.077	0.034	0.083	-0.048
02	0.654	-1.245	0.174	-0.515
03	-0.081	0.096	-0.024	0.0
04	1.019	-0.589	-0.5	-2.697
05	-6.659	-6.659	-6.659	1.385
06	1.385	-6.659	-6.659	-6.659
07	1.385	-6.659	-6.659	-6.659
08	-6.659	1.385	-6.659	-6.659
09	-6.659	-6.659	1.385	-6.659
10	-6.659	-6.659	1.385	-6.659
11	-0.998	-6.659	-4.398	1.286
12	0.418	-0.124	-1.802	0.36
13	-0.08	0.344	-1.727	0.398
14	-0.053	0.042	-0.093	0.094

Standard thresholds

P-value	Threshold
0.001	-0.16193
0.0005	1.441225
0.0001	5.189915