ZIC4.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZIC4.H12INVIVO.0.SM.D
Gene (human)	ZIC4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Zic4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	15
Consensus	dvdYvGYRGGGGGKn
GC content	66.3%
Information content (bits; total / per base)	12.026 / 0.802
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9863

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.992	0.987	0.931	0.929	0.742	0.775
Overall, 3 experiments	best	0.995	0.994	0.987	0.979	0.973	0.961
Methyl HT-SELEX, 1 experiments	median	0.992	0.987	0.987	0.979	0.973	0.961
Methyl HT-SELEX, 1 experiments	best	0.992	0.987	0.987	0.979	0.973	0.961
Non-Methyl HT-SELEX, 2 experiments	median	0.942	0.932	0.83	0.83	0.68	0.707
Non-Methyl HT-SELEX, 2 experiments	best	0.995	0.994	0.931	0.929	0.742	0.775

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.869	0.642	0.867	0.635

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: 2.3.3.1.10
HGNC	HGNC:20393
MGI	MGI:107201
EntrezGene (human)	GeneID:84107 (SSTAR profile)
EntrezGene (mouse)	GeneID:22774 (SSTAR profile)
UniProt ID (human)	ZIC4_HUMAN
UniProt ID (mouse)	ZIC4_MOUSE
UniProt AC (human)	Q8N9L1 (TFClass)
UniProt AC (mouse)	Q61467 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	1

PCM	ZIC4.H12INVIVO.0.SM.D.pcm
PWM	ZIC4.H12INVIVO.0.SM.D.pwm
PFM	ZIC4.H12INVIVO.0.SM.D.pfm
Alignment	ZIC4.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	ZIC4.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	ZIC4.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	ZIC4.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	ZIC4.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	ZIC4.H12INVIVO.0.SM.D_homer_format_0.001.txt ZIC4.H12INVIVO.0.SM.D_homer_format_0.0005.txt ZIC4.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2112.0	1263.0	3304.0	3184.0
02	3151.0	4422.0	1687.0	603.0
03	4938.0	751.0	1795.0	2379.0
04	651.0	7352.0	349.0	1511.0
05	5514.0	1954.0	1483.0	912.0
06	1608.0	207.0	7877.0	171.0
07	263.0	6170.0	892.0	2538.0
08	4541.0	1.0	5269.0	52.0
09	33.0	7.0	8822.0	1001.0
10	4.0	12.0	9837.0	10.0
11	817.0	85.0	8140.0	821.0
12	375.0	249.0	8615.0	624.0
13	579.0	107.0	8076.0	1101.0
14	209.75	1652.75	1939.75	6060.75
15	2478.0	3242.0	2522.0	1621.0

PFM

	A	C	G	T
01	0.214	0.128	0.335	0.323
02	0.319	0.448	0.171	0.061
03	0.501	0.076	0.182	0.241
04	0.066	0.745	0.035	0.153
05	0.559	0.198	0.15	0.092
06	0.163	0.021	0.799	0.017
07	0.027	0.626	0.09	0.257
08	0.46	0.0	0.534	0.005
09	0.003	0.001	0.894	0.101
10	0.0	0.001	0.997	0.001
11	0.083	0.009	0.825	0.083
12	0.038	0.025	0.873	0.063
13	0.059	0.011	0.819	0.112
14	0.021	0.168	0.197	0.614
15	0.251	0.329	0.256	0.164

PWM

	A	C	G	T
01	-0.155	-0.668	0.292	0.255
02	0.245	0.584	-0.379	-1.405
03	0.694	-1.187	-0.317	-0.036
04	-1.329	1.092	-1.95	-0.489
05	0.804	-0.232	-0.508	-0.993
06	-0.427	-2.467	1.161	-2.656
07	-2.23	0.917	-1.015	0.029
08	0.61	-6.618	0.759	-3.817
09	-4.247	-5.581	1.274	-0.9
10	-5.971	-5.151	1.383	-5.302
11	-1.103	-3.342	1.194	-1.098
12	-1.878	-2.285	1.25	-1.371
13	-1.446	-3.117	1.186	-0.805
14	-2.454	-0.4	-0.24	0.899
15	0.005	0.273	0.023	-0.419

Standard thresholds

P-value	Threshold
0.001	4.15756
0.0005	5.16206
0.0001	7.18271