GLI3.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GLI3.H12INVITRO.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	16
Consensus	SdhSGTGGGTGGTCbn
GC content	64.66%
Information content (bits; total / per base)	20.579 / 1.286
Data sources	ChIP-Seq + HT-SELEX
Aligned words	9711

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)	0.757	0.803	0.688	0.744	0.736	0.797	3.107	3.476	36.989	69.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.998	0.997	0.884	0.904	0.795	0.832
Overall, 2 experiments	best	1.0	1.0	1.0	0.999	0.999	0.999
Methyl HT-SELEX, 1 experiments	median	0.996	0.995	0.769	0.808	0.591	0.664
Methyl HT-SELEX, 1 experiments	best	0.996	0.995	0.769	0.808	0.591	0.664
Non-Methyl HT-SELEX, 1 experiments	median	1.0	1.0	1.0	0.999	0.999	0.999
Non-Methyl HT-SELEX, 1 experiments	best	1.0	1.0	1.0	0.999	0.999	0.999

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.586	0.226	0.333	0.15
batch 2	0.811	0.451	0.836	0.595

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.H12INVITRO.0.PS.A.pcm
PWM	GLI3.H12INVITRO.0.PS.A.pwm
PFM	GLI3.H12INVITRO.0.PS.A.pfm
Alignment	GLI3.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	GLI3.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	GLI3.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	GLI3.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	GLI3.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	GLI3.H12INVITRO.0.PS.A_homer_format_0.001.txt GLI3.H12INVITRO.0.PS.A_homer_format_0.0005.txt GLI3.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	892.5	6908.5	1290.5	619.5
02	1966.25	1106.25	4050.25	2588.25
03	3355.0	1333.0	1161.0	3862.0
04	387.0	6050.0	2020.0	1254.0
05	188.0	220.0	8805.0	498.0
06	6.0	85.0	11.0	9609.0
07	18.0	3.0	9677.0	13.0
08	0.0	2.0	9554.0	155.0
09	0.0	0.0	9710.0	1.0
10	5.0	0.0	2.0	9704.0
11	0.0	0.0	9711.0	0.0
12	2.0	3.0	9706.0	0.0
13	3.0	137.0	396.0	9175.0
14	95.0	9566.0	33.0	17.0
15	357.5	2978.5	1852.5	4522.5
16	2385.0	1841.0	2251.0	3234.0

PFM

	A	C	G	T
01	0.092	0.711	0.133	0.064
02	0.202	0.114	0.417	0.267
03	0.345	0.137	0.12	0.398
04	0.04	0.623	0.208	0.129
05	0.019	0.023	0.907	0.051
06	0.001	0.009	0.001	0.989
07	0.002	0.0	0.996	0.001
08	0.0	0.0	0.984	0.016
09	0.0	0.0	1.0	0.0
10	0.001	0.0	0.0	0.999
11	0.0	0.0	1.0	0.0
12	0.0	0.0	0.999	0.0
13	0.0	0.014	0.041	0.945
14	0.01	0.985	0.003	0.002
15	0.037	0.307	0.191	0.466
16	0.246	0.19	0.232	0.333

PWM

	A	C	G	T
01	-0.999	1.045	-0.631	-1.363
02	-0.211	-0.785	0.511	0.064
03	0.323	-0.599	-0.737	0.464
04	-1.831	0.913	-0.184	-0.66
05	-2.547	-2.392	1.288	-1.58
06	-5.68	-3.326	-5.208	1.375
07	-4.785	-6.129	1.382	-5.068
08	-6.965	-6.338	1.369	-2.738
09	-6.965	-6.965	1.385	-6.603
10	-5.808	-6.965	-6.338	1.385
11	-6.965	-6.965	1.386	-6.965
12	-6.338	-6.129	1.385	-6.965
13	-6.129	-2.859	-1.808	1.329
14	-3.218	1.371	-4.232	-4.836
15	-1.91	0.204	-0.27	0.622
16	-0.018	-0.276	-0.076	0.287

Standard thresholds

P-value	Threshold
0.001	-4.42794
0.0005	-2.35624
0.0001	2.03231