ZIC3.H12INVIVO.2.M.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZIC3.H12INVIVO.2.M.B
Gene (human)	ZIC3 (GeneCards)
Gene synonyms (human)	ZNF203
Gene (mouse)	Zic3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	16
Consensus	ndCWCAGCAGGGGGKn
GC content	69.08%
Information content (bits; total / per base)	19.271 / 1.204
Data sources	Methyl-HT-SELEX
Aligned words	8716

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)	0.839	0.902	0.702	0.817	0.784	0.865	2.228	3.177	73.013	242.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.744	0.763	0.612	0.636	0.555	0.578
Overall, 6 experiments	best	1.0	1.0	0.999	0.999	0.998	0.997
Methyl HT-SELEX, 2 experiments	median	0.815	0.826	0.781	0.788	0.767	0.771
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	0.999	0.999	0.998	0.997
Non-Methyl HT-SELEX, 4 experiments	median	0.744	0.763	0.612	0.636	0.555	0.578
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.998	0.997	0.996	0.988	0.984

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.863	0.051	0.846	0.522
batch 2	0.818	0.576	0.584	0.436

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.H12INVIVO.2.M.B.pcm
PWM	ZIC3.H12INVIVO.2.M.B.pwm
PFM	ZIC3.H12INVIVO.2.M.B.pfm
Alignment	ZIC3.H12INVIVO.2.M.B.words.tsv
Threshold to P-value map	ZIC3.H12INVIVO.2.M.B.thr
Motif in other formats
JASPAR format	ZIC3.H12INVIVO.2.M.B_jaspar_format.txt
MEME format	ZIC3.H12INVIVO.2.M.B_meme_format.meme
Transfac format	ZIC3.H12INVIVO.2.M.B_transfac_format.txt
Homer format	ZIC3.H12INVIVO.2.M.B_homer_format_0.001.txt ZIC3.H12INVIVO.2.M.B_homer_format_0.0005.txt ZIC3.H12INVIVO.2.M.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1641.75	2390.75	2471.75	2211.75
02	1358.0	557.0	3826.0	2975.0
03	1784.0	6649.0	247.0	36.0
04	6413.0	138.0	617.0	1548.0
05	8.0	8662.0	5.0	41.0
06	8072.0	417.0	194.0	33.0
07	33.0	6.0	8675.0	2.0
08	3.0	8088.0	63.0	562.0
09	5847.0	1.0	2860.0	8.0
10	0.0	2.0	8630.0	84.0
11	1.0	1.0	8708.0	6.0
12	301.0	12.0	8136.0	267.0
13	171.0	62.0	8145.0	338.0
14	306.0	35.0	7644.0	731.0
15	76.0	1440.0	2303.0	4897.0
16	2021.5	2554.5	2793.5	1346.5

PFM

	A	C	G	T
01	0.188	0.274	0.284	0.254
02	0.156	0.064	0.439	0.341
03	0.205	0.763	0.028	0.004
04	0.736	0.016	0.071	0.178
05	0.001	0.994	0.001	0.005
06	0.926	0.048	0.022	0.004
07	0.004	0.001	0.995	0.0
08	0.0	0.928	0.007	0.064
09	0.671	0.0	0.328	0.001
10	0.0	0.0	0.99	0.01
11	0.0	0.0	0.999	0.001
12	0.035	0.001	0.933	0.031
13	0.02	0.007	0.934	0.039
14	0.035	0.004	0.877	0.084
15	0.009	0.165	0.264	0.562
16	0.232	0.293	0.321	0.154

PWM

	A	C	G	T
01	-0.283	0.093	0.126	0.015
02	-0.472	-1.361	0.563	0.311
03	-0.2	1.115	-2.169	-4.043
04	1.079	-2.744	-1.259	-0.341
05	-5.359	1.379	-5.704	-3.92
06	1.309	-1.649	-2.408	-4.125
07	-4.125	-5.575	1.381	-6.236
08	-6.026	1.311	-3.509	-1.352
09	0.986	-6.503	0.272	-5.359
10	-6.869	-6.236	1.376	-3.23
11	-6.503	-6.503	1.385	-5.575
12	-1.973	-5.03	1.317	-2.092
13	-2.533	-3.525	1.318	-1.858
14	-1.957	-4.07	1.254	-1.09
15	-3.328	-0.414	0.055	0.809
16	-0.075	0.159	0.248	-0.481

Standard thresholds

P-value	Threshold
0.001	-1.28584
0.0005	0.46006
0.0001	4.09821