OVOL2.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	OVOL2.H12INVITRO.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	ndnvTAACGGThhn
GC content	42.85%
Information content (bits; total / per base)	13.369 / 0.955
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9968

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)	0.952	0.965	0.91	0.926	0.92	0.942	3.771	4.049	465.678	483.167

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.997	0.995	0.996	0.994	0.99	0.986
Overall, 4 experiments	best	0.999	0.998	0.999	0.997	0.997	0.996
Methyl HT-SELEX, 2 experiments	median	0.997	0.994	0.994	0.991	0.967	0.963
Methyl HT-SELEX, 2 experiments	best	0.998	0.997	0.997	0.995	0.989	0.986
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	0.999	0.998	0.999	0.997	0.997	0.996

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.74	0.357	0.831	0.682

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.H12INVITRO.0.PSM.A.pcm
PWM	OVOL2.H12INVITRO.0.PSM.A.pwm
PFM	OVOL2.H12INVITRO.0.PSM.A.pfm
Alignment	OVOL2.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	OVOL2.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	OVOL2.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	OVOL2.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	OVOL2.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	OVOL2.H12INVITRO.0.PSM.A_homer_format_0.001.txt OVOL2.H12INVITRO.0.PSM.A_homer_format_0.0005.txt OVOL2.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2378.0	2535.0	2602.0	2453.0
02	4325.75	1129.75	2771.75	1740.75
03	2329.0	2617.0	2542.0	2480.0
04	5719.0	1644.0	1933.0	672.0
05	22.0	62.0	58.0	9826.0
06	9964.0	3.0	0.0	1.0
07	9870.0	0.0	97.0	1.0
08	1.0	9967.0	0.0	0.0
09	124.0	12.0	9695.0	137.0
10	13.0	51.0	9837.0	67.0
11	1701.0	183.0	360.0	7724.0
12	3892.0	2054.0	723.0	3299.0
13	2513.5	3289.5	771.5	3393.5
14	2416.75	2565.75	2296.75	2688.75

PFM

	A	C	G	T
01	0.239	0.254	0.261	0.246
02	0.434	0.113	0.278	0.175
03	0.234	0.263	0.255	0.249
04	0.574	0.165	0.194	0.067
05	0.002	0.006	0.006	0.986
06	1.0	0.0	0.0	0.0
07	0.99	0.0	0.01	0.0
08	0.0	1.0	0.0	0.0
09	0.012	0.001	0.973	0.014
10	0.001	0.005	0.987	0.007
11	0.171	0.018	0.036	0.775
12	0.39	0.206	0.073	0.331
13	0.252	0.33	0.077	0.34
14	0.242	0.257	0.23	0.27

PWM

	A	C	G	T
01	-0.047	0.017	0.043	-0.016
02	0.551	-0.79	0.106	-0.358
03	-0.068	0.049	0.02	-0.005
04	0.83	-0.415	-0.254	-1.308
05	-4.631	-3.658	-3.722	1.371
06	1.385	-6.154	-6.988	-6.627
07	1.376	-6.988	-3.224	-6.627
08	-6.627	1.386	-6.988	-6.988
09	-2.983	-5.161	1.358	-2.885
10	-5.094	-3.846	1.372	-3.583
11	-0.381	-2.6	-1.929	1.131
12	0.446	-0.193	-1.235	0.28
13	0.009	0.277	-1.17	0.309
14	-0.031	0.029	-0.082	0.076

Standard thresholds

P-value	Threshold
0.001	2.48376
0.0005	3.94766
0.0001	7.032615