ZIC3.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ZIC3.H12INVITRO.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	16
Consensus	dMdCMGCGGGRKRbhn
GC content	66.13%
Information content (bits; total / per base)	12.685 / 0.793
Data sources	HT-SELEX
Aligned words	5187

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)	0.851	0.908	0.709	0.822	0.754	0.858	2.062	2.867	77.432	248.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.749	0.77	0.612	0.639	0.557	0.58
Overall, 6 experiments	best	1.0	0.999	0.999	0.999	0.998	0.997
Methyl HT-SELEX, 2 experiments	median	0.813	0.825	0.779	0.787	0.766	0.771
Methyl HT-SELEX, 2 experiments	best	1.0	0.999	0.999	0.999	0.998	0.997
Non-Methyl HT-SELEX, 4 experiments	median	0.749	0.77	0.612	0.639	0.557	0.58
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.998	0.998	0.997	0.995	0.993

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.879	0.065	0.801	0.411
batch 2	0.796	0.562	0.691	0.508

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.1.S.B.pcm
PWM	ZIC3.H12INVITRO.1.S.B.pwm
PFM	ZIC3.H12INVITRO.1.S.B.pfm
Alignment	ZIC3.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	ZIC3.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	ZIC3.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	ZIC3.H12INVITRO.1.S.B_meme_format.meme
Transfac format	ZIC3.H12INVITRO.1.S.B_transfac_format.txt
Homer format	ZIC3.H12INVITRO.1.S.B_homer_format_0.001.txt ZIC3.H12INVITRO.1.S.B_homer_format_0.0005.txt ZIC3.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1622.75	516.75	1413.75	1633.75
02	1193.75	3152.75	405.75	434.75
03	2554.0	425.0	1374.0	834.0
04	211.0	4607.0	126.0	243.0
05	3765.0	777.0	261.0	384.0
06	791.0	122.0	4234.0	40.0
07	46.0	4592.0	129.0	420.0
08	1681.0	0.0	3483.0	23.0
09	109.0	94.0	4781.0	203.0
10	235.0	80.0	4699.0	173.0
11	535.0	105.0	4093.0	454.0
12	383.0	187.0	4086.0	531.0
13	520.0	171.0	3977.0	519.0
14	483.0	1164.0	796.0	2744.0
15	1579.75	2138.75	722.75	745.75
16	1387.25	1074.25	1094.25	1631.25

PFM

	A	C	G	T
01	0.313	0.1	0.273	0.315
02	0.23	0.608	0.078	0.084
03	0.492	0.082	0.265	0.161
04	0.041	0.888	0.024	0.047
05	0.726	0.15	0.05	0.074
06	0.152	0.024	0.816	0.008
07	0.009	0.885	0.025	0.081
08	0.324	0.0	0.671	0.004
09	0.021	0.018	0.922	0.039
10	0.045	0.015	0.906	0.033
11	0.103	0.02	0.789	0.088
12	0.074	0.036	0.788	0.102
13	0.1	0.033	0.767	0.1
14	0.093	0.224	0.153	0.529
15	0.305	0.412	0.139	0.144
16	0.267	0.207	0.211	0.314

PWM

	A	C	G	T
01	0.224	-0.918	0.086	0.231
02	-0.083	0.887	-1.158	-1.09
03	0.677	-1.112	0.058	-0.44
04	-1.807	1.267	-2.316	-1.667
05	1.065	-0.511	-1.597	-1.213
06	-0.493	-2.348	1.182	-3.428
07	-3.295	1.263	-2.293	-1.124
08	0.259	-6.409	0.987	-3.945
09	-2.458	-2.603	1.304	-1.846
10	-1.701	-2.761	1.286	-2.004
11	-0.883	-2.495	1.148	-1.046
12	-1.216	-1.927	1.147	-0.89
13	-0.911	-2.015	1.12	-0.913
14	-0.985	-0.108	-0.487	0.749
15	0.197	0.5	-0.583	-0.552
16	0.067	-0.188	-0.169	0.229

Standard thresholds

P-value	Threshold
0.001	3.99146
0.0005	4.95931
0.0001	6.98476