GLI3.H12RSNP.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GLI3.H12RSNP.1.M.C
Gene (human)	GLI3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gli3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	15
Consensus	nbGTGGTCThdnnnn
GC content	55.56%
Information content (bits; total / per base)	13.707 / 0.914
Data sources	Methyl-HT-SELEX
Aligned words	302

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)	0.594	0.601	0.48	0.487	0.613	0.667	1.709	1.978	10.959	22.721

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.997	0.994	0.995	0.991	0.992	0.988
Overall, 2 experiments	best	0.999	0.997	0.998	0.996	0.997	0.995
Methyl HT-SELEX, 1 experiments	median	0.999	0.997	0.998	0.996	0.997	0.995
Methyl HT-SELEX, 1 experiments	best	0.999	0.997	0.998	0.996	0.997	0.995
Non-Methyl HT-SELEX, 1 experiments	median	0.994	0.99	0.992	0.987	0.988	0.981
Non-Methyl HT-SELEX, 1 experiments	best	0.994	0.99	0.992	0.987	0.988	0.981

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.57	0.109	0.199	0.039
batch 2	0.677	0.251	0.687	0.483

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.H12RSNP.1.M.C.pcm
PWM	GLI3.H12RSNP.1.M.C.pwm
PFM	GLI3.H12RSNP.1.M.C.pfm
Alignment	GLI3.H12RSNP.1.M.C.words.tsv
Threshold to P-value map	GLI3.H12RSNP.1.M.C.thr
Motif in other formats
JASPAR format	GLI3.H12RSNP.1.M.C_jaspar_format.txt
MEME format	GLI3.H12RSNP.1.M.C_meme_format.meme
Transfac format	GLI3.H12RSNP.1.M.C_transfac_format.txt
Homer format	GLI3.H12RSNP.1.M.C_homer_format_0.001.txt GLI3.H12RSNP.1.M.C_homer_format_0.0005.txt GLI3.H12RSNP.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	64.25	61.25	117.25	59.25
02	55.0	67.0	124.0	56.0
03	0.0	0.0	302.0	0.0
04	0.0	0.0	0.0	302.0
05	0.0	0.0	302.0	0.0
06	0.0	0.0	302.0	0.0
07	0.0	0.0	0.0	302.0
08	0.0	302.0	0.0	0.0
09	0.0	150.0	0.0	152.0
10	70.0	49.0	22.0	161.0
11	82.0	31.0	67.0	122.0
12	67.0	63.0	106.0	66.0
13	73.0	85.0	75.0	69.0
14	65.5	71.5	83.5	81.5
15	97.25	55.25	81.25	68.25

PFM

	A	C	G	T
01	0.213	0.203	0.388	0.196
02	0.182	0.222	0.411	0.185
03	0.0	0.0	1.0	0.0
04	0.0	0.0	0.0	1.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	1.0	0.0
07	0.0	0.0	0.0	1.0
08	0.0	1.0	0.0	0.0
09	0.0	0.497	0.0	0.503
10	0.232	0.162	0.073	0.533
11	0.272	0.103	0.222	0.404
12	0.222	0.209	0.351	0.219
13	0.242	0.281	0.248	0.228
14	0.217	0.237	0.276	0.27
15	0.322	0.183	0.269	0.226

PWM

	A	C	G	T
01	-0.158	-0.205	0.434	-0.237
02	-0.31	-0.117	0.489	-0.292
03	-3.987	-3.987	1.372	-3.987
04	-3.987	-3.987	-3.987	1.372
05	-3.987	-3.987	1.372	-3.987
06	-3.987	-3.987	1.372	-3.987
07	-3.987	-3.987	-3.987	1.372
08	-3.987	1.372	-3.987	-3.987
09	-3.987	0.677	-3.987	0.69
10	-0.074	-0.422	-1.189	0.747
11	0.081	-0.864	-0.117	0.473
12	-0.117	-0.177	0.334	-0.132
13	-0.033	0.116	-0.007	-0.088
14	-0.139	-0.053	0.099	0.075
15	0.249	-0.305	0.072	-0.099

Standard thresholds

P-value	Threshold
0.001	3.43076
0.0005	4.12561
0.0001	7.47616