GLI3.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GLI3.H12INVIVO.0.PS.A
Gene (human)	GLI3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gli3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	bSTGGGTGGbYb
GC content	67.65%
Information content (bits; total / per base)	11.355 / 0.946
Data sources	ChIP-Seq + HT-SELEX
Aligned words	995

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	2 (8)	0.767	0.811	0.698	0.742	0.763	0.813	3.066	3.398	33.618	74.77

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.999	0.998	0.999	0.999	0.999	0.998
Overall, 2 experiments	best	1.0	0.999	0.999	0.999	0.999	0.999
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.999	0.998	0.999	0.999
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.999	0.998	0.999	0.999
Non-Methyl HT-SELEX, 1 experiments	median	1.0	0.999	0.999	0.999	0.998	0.997
Non-Methyl HT-SELEX, 1 experiments	best	1.0	0.999	0.999	0.999	0.998	0.997

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.592	0.199	0.275	0.052
batch 2	0.796	0.354	0.817	0.582

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: 2.3.3.1.3
HGNC	HGNC:4319
MGI	MGI:95729
EntrezGene (human)	GeneID:2737 (SSTAR profile)
EntrezGene (mouse)	GeneID:14634 (SSTAR profile)
UniProt ID (human)	GLI3_HUMAN
UniProt ID (mouse)	GLI3_MOUSE
UniProt AC (human)	P10071 (TFClass)
UniProt AC (mouse)	Q61602 (TFClass)
GRECO-DB-TF	yes

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

PCM	GLI3.H12INVIVO.0.PS.A.pcm
PWM	GLI3.H12INVIVO.0.PS.A.pwm
PFM	GLI3.H12INVIVO.0.PS.A.pfm
Alignment	GLI3.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	GLI3.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	GLI3.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	GLI3.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	GLI3.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	GLI3.H12INVIVO.0.PS.A_homer_format_0.001.txt GLI3.H12INVIVO.0.PS.A_homer_format_0.0005.txt GLI3.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	81.0	375.0	265.0	274.0
02	43.0	425.0	440.0	87.0
03	77.0	100.0	23.0	795.0
04	15.0	25.0	916.0	39.0
05	13.0	4.0	738.0	240.0
06	7.0	27.0	953.0	8.0
07	132.0	35.0	30.0	798.0
08	7.0	8.0	966.0	14.0
09	10.0	19.0	918.0	48.0
10	14.0	299.0	212.0	470.0
11	87.0	709.0	82.0	117.0
12	126.0	315.0	193.0	361.0

PFM

	A	C	G	T
01	0.081	0.377	0.266	0.275
02	0.043	0.427	0.442	0.087
03	0.077	0.101	0.023	0.799
04	0.015	0.025	0.921	0.039
05	0.013	0.004	0.742	0.241
06	0.007	0.027	0.958	0.008
07	0.133	0.035	0.03	0.802
08	0.007	0.008	0.971	0.014
09	0.01	0.019	0.923	0.048
10	0.014	0.301	0.213	0.472
11	0.087	0.713	0.082	0.118
12	0.127	0.317	0.194	0.363

PWM

	A	C	G	T
01	-1.108	0.408	0.063	0.096
02	-1.723	0.533	0.567	-1.038
03	-1.157	-0.901	-2.316	1.157
04	-2.706	-2.238	1.299	-1.817
05	-2.834	-3.778	1.083	-0.036
06	-3.357	-2.166	1.338	-3.249
07	-0.628	-1.92	-2.066	1.161
08	-3.357	-3.249	1.352	-2.768
09	-3.062	-2.492	1.301	-1.617
10	-2.768	0.183	-0.159	0.633
11	-1.038	1.043	-1.096	-0.747
12	-0.673	0.235	-0.252	0.37

Standard thresholds

P-value	Threshold
0.001	4.36271
0.0005	5.300485
0.0001	7.25262