ZIC3.H12INVITRO.2.M.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZIC3.H12INVITRO.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	ndCACAGCAGGGGGKn
GC content	68.25%
Information content (bits; total / per base)	20.01 / 1.251
Data sources	Methyl-HT-SELEX
Aligned words	9994

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)	0.84	0.901	0.703	0.815	0.777	0.86	2.196	3.184	69.921	240.222

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.744	0.763	0.613	0.636	0.555	0.578
Overall, 6 experiments	best	1.0	1.0	1.0	0.999	0.998	0.998
Methyl HT-SELEX, 2 experiments	median	0.817	0.827	0.782	0.789	0.768	0.772
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	0.999	0.998	0.998
Non-Methyl HT-SELEX, 4 experiments	median	0.744	0.763	0.613	0.636	0.555	0.578
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.998	0.997	0.996	0.988	0.985

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.83	0.049	0.838	0.544
batch 2	0.827	0.587	0.623	0.443

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.H12INVITRO.2.M.B.pcm
PWM	ZIC3.H12INVITRO.2.M.B.pwm
PFM	ZIC3.H12INVITRO.2.M.B.pfm
Alignment	ZIC3.H12INVITRO.2.M.B.words.tsv
Threshold to P-value map	ZIC3.H12INVITRO.2.M.B.thr
Motif in other formats
JASPAR format	ZIC3.H12INVITRO.2.M.B_jaspar_format.txt
MEME format	ZIC3.H12INVITRO.2.M.B_meme_format.meme
Transfac format	ZIC3.H12INVITRO.2.M.B_transfac_format.txt
Homer format	ZIC3.H12INVITRO.2.M.B_homer_format_0.001.txt ZIC3.H12INVITRO.2.M.B_homer_format_0.0005.txt ZIC3.H12INVITRO.2.M.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1912.0	2926.0	2677.0	2479.0
02	1544.75	517.75	4338.75	3592.75
03	1939.0	7881.0	149.0	25.0
04	8046.0	121.0	454.0	1373.0
05	12.0	9925.0	34.0	23.0
06	9405.0	356.0	196.0	37.0
07	60.0	7.0	9926.0	1.0
08	7.0	9481.0	56.0	450.0
09	7673.0	0.0	2317.0	4.0
10	7.0	5.0	9868.0	114.0
11	6.0	9.0	9972.0	7.0
12	319.0	8.0	9428.0	239.0
13	165.0	40.0	9423.0	366.0
14	309.0	41.0	8788.0	856.0
15	53.0	1701.0	2434.0	5806.0
16	2545.5	3061.5	2996.5	1390.5

PFM

	A	C	G	T
01	0.191	0.293	0.268	0.248
02	0.155	0.052	0.434	0.359
03	0.194	0.789	0.015	0.003
04	0.805	0.012	0.045	0.137
05	0.001	0.993	0.003	0.002
06	0.941	0.036	0.02	0.004
07	0.006	0.001	0.993	0.0
08	0.001	0.949	0.006	0.045
09	0.768	0.0	0.232	0.0
10	0.001	0.001	0.987	0.011
11	0.001	0.001	0.998	0.001
12	0.032	0.001	0.943	0.024
13	0.017	0.004	0.943	0.037
14	0.031	0.004	0.879	0.086
15	0.005	0.17	0.244	0.581
16	0.255	0.306	0.3	0.139

PWM

	A	C	G	T
01	-0.267	0.158	0.069	-0.008
02	-0.48	-1.57	0.552	0.363
03	-0.253	1.148	-2.805	-4.517
04	1.169	-3.01	-1.701	-0.598
05	-5.164	1.379	-4.232	-4.593
06	1.325	-1.943	-2.535	-4.153
07	-3.692	-5.594	1.379	-6.63
08	-5.594	1.333	-3.759	-1.71
09	1.121	-6.99	-0.075	-5.983
10	-5.594	-5.836	1.373	-3.068
11	-5.708	-5.399	1.383	-5.594
12	-2.052	-5.492	1.327	-2.338
13	-2.705	-4.08	1.327	-1.915
14	-2.084	-4.056	1.257	-1.069
15	-3.812	-0.384	-0.026	0.843
16	0.019	0.203	0.182	-0.585

Standard thresholds

P-value	Threshold
0.001	-1.76584
0.0005	-0.01359
0.0001	3.65666