ZIC3.H12RSNP.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZIC3.H12RSNP.1.S.B
Gene (human)	ZIC3 (GeneCards)
Gene synonyms (human)	ZNF203
Gene (mouse)	Zic3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	17
Consensus	nMdCMGCGGGGGGbvnn
GC content	69.54%
Information content (bits; total / per base)	15.843 / 0.932
Data sources	HT-SELEX
Aligned words	592

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	4 (27)	0.766	0.852	0.611	0.739	0.658	0.751	1.653	2.179	51.886	203.469

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.737	0.76	0.602	0.632	0.546	0.573
Overall, 6 experiments	best	0.999	0.999	0.998	0.997	0.994	0.992
Methyl HT-SELEX, 2 experiments	median	0.795	0.814	0.77	0.78	0.759	0.764
Methyl HT-SELEX, 2 experiments	best	0.999	0.999	0.998	0.997	0.994	0.992
Non-Methyl HT-SELEX, 4 experiments	median	0.737	0.76	0.602	0.632	0.546	0.573
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.997	0.997	0.995	0.991	0.987

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.892	0.14	0.851	0.522
batch 2	0.804	0.582	0.701	0.492

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	GLI-lile {2.3.3.1} (TFClass)
TFClass ID	TFClass: 2.3.3.1.9
HGNC	HGNC:12874
MGI	MGI:106676
EntrezGene (human)	GeneID:7547 (SSTAR profile)
EntrezGene (mouse)	GeneID:22773 (SSTAR profile)
UniProt ID (human)	ZIC3_HUMAN
UniProt ID (mouse)	ZIC3_MOUSE
UniProt AC (human)	O60481 (TFClass)
UniProt AC (mouse)	Q62521 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 4 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	ZIC3.H12RSNP.1.S.B.pcm
PWM	ZIC3.H12RSNP.1.S.B.pwm
PFM	ZIC3.H12RSNP.1.S.B.pfm
Alignment	ZIC3.H12RSNP.1.S.B.words.tsv
Threshold to P-value map	ZIC3.H12RSNP.1.S.B.thr
Motif in other formats
JASPAR format	ZIC3.H12RSNP.1.S.B_jaspar_format.txt
MEME format	ZIC3.H12RSNP.1.S.B_meme_format.meme
Transfac format	ZIC3.H12RSNP.1.S.B_transfac_format.txt
Homer format	ZIC3.H12RSNP.1.S.B_homer_format_0.001.txt ZIC3.H12RSNP.1.S.B_homer_format_0.0005.txt ZIC3.H12RSNP.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	172.75	67.75	175.75	175.75
02	140.0	351.0	61.0	40.0
03	282.0	59.0	153.0	98.0
04	23.0	512.0	15.0	42.0
05	437.0	88.0	26.0	41.0
06	99.0	2.0	488.0	3.0
07	2.0	536.0	33.0	21.0
08	118.0	0.0	473.0	1.0
09	0.0	0.0	592.0	0.0
10	0.0	0.0	591.0	1.0
11	15.0	0.0	570.0	7.0
12	11.0	3.0	566.0	12.0
13	30.0	4.0	523.0	35.0
14	59.0	124.0	152.0	257.0
15	195.0	218.0	106.0	73.0
16	150.75	125.75	118.75	196.75
17	154.75	130.75	133.75	172.75

PFM

	A	C	G	T
01	0.292	0.114	0.297	0.297
02	0.236	0.593	0.103	0.068
03	0.476	0.1	0.258	0.166
04	0.039	0.865	0.025	0.071
05	0.738	0.149	0.044	0.069
06	0.167	0.003	0.824	0.005
07	0.003	0.905	0.056	0.035
08	0.199	0.0	0.799	0.002
09	0.0	0.0	1.0	0.0
10	0.0	0.0	0.998	0.002
11	0.025	0.0	0.963	0.012
12	0.019	0.005	0.956	0.02
13	0.051	0.007	0.883	0.059
14	0.1	0.209	0.257	0.434
15	0.329	0.368	0.179	0.123
16	0.255	0.212	0.201	0.332
17	0.261	0.221	0.226	0.292

PWM

	A	C	G	T
01	0.153	-0.769	0.17	0.17
02	-0.055	0.857	-0.871	-1.28
03	0.64	-0.904	0.033	-0.407
04	-1.805	1.233	-2.199	-1.233
05	1.076	-0.513	-1.69	-1.256
06	-0.397	-3.728	1.186	-3.483
07	-3.728	1.279	-1.464	-1.89
08	-0.224	-4.541	1.155	-4.054
09	-4.541	-4.541	1.378	-4.541
10	-4.541	-4.541	1.377	-4.054
11	-2.199	-4.541	1.34	-2.857
12	-2.475	-3.483	1.333	-2.398
13	-1.555	-3.286	1.255	-1.408
14	-0.904	-0.175	0.026	0.547
15	0.273	0.384	-0.33	-0.696
16	0.018	-0.161	-0.218	0.282
17	0.044	-0.123	-0.1	0.153

Standard thresholds

P-value	Threshold
0.001	2.45056
0.0005	3.72326
0.0001	6.36306