GLI3.H12INVIVO.1.M.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GLI3.H12INVIVO.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	12
Consensus	nnGTGGTCCdnn
GC content	60.31%
Information content (bits; total / per base)	13.685 / 1.14
Data sources	Methyl-HT-SELEX
Aligned words	5897

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)	0.592	0.603	0.475	0.505	0.607	0.655	1.739	1.927	13.688	23.143

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.997	0.996	0.995	0.993	0.992	0.988
Overall, 2 experiments	best	0.999	0.998	0.999	0.998	0.996	0.995
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.999	0.998	0.996	0.995
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.999	0.998	0.996	0.995
Non-Methyl HT-SELEX, 1 experiments	median	0.996	0.993	0.992	0.988	0.988	0.981
Non-Methyl HT-SELEX, 1 experiments	best	0.996	0.993	0.992	0.988	0.988	0.981

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.541	0.135	0.19	0.02
batch 2	0.661	0.211	0.683	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: 2.3.3.1.3
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.1.M.C.pcm
PWM	GLI3.H12INVIVO.1.M.C.pwm
PFM	GLI3.H12INVIVO.1.M.C.pfm
Alignment	GLI3.H12INVIVO.1.M.C.words.tsv
Threshold to P-value map	GLI3.H12INVIVO.1.M.C.thr
Motif in other formats
JASPAR format	GLI3.H12INVIVO.1.M.C_jaspar_format.txt
MEME format	GLI3.H12INVIVO.1.M.C_meme_format.meme
Transfac format	GLI3.H12INVIVO.1.M.C_transfac_format.txt
Homer format	GLI3.H12INVIVO.1.M.C_homer_format_0.001.txt GLI3.H12INVIVO.1.M.C_homer_format_0.0005.txt GLI3.H12INVIVO.1.M.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1219.5	1191.5	2279.5	1206.5
02	1174.75	1184.75	2311.75	1225.75
03	0.0	0.0	5897.0	0.0
04	0.0	0.0	0.0	5897.0
05	0.0	0.0	5897.0	0.0
06	0.0	0.0	5897.0	0.0
07	0.0	0.0	0.0	5897.0
08	0.0	5897.0	0.0	0.0
09	0.0	5023.0	0.0	874.0
10	1464.0	817.0	1337.0	2279.0
11	1482.25	1046.25	1203.25	2165.25
12	1563.75	1299.75	1392.75	1640.75

PFM

	A	C	G	T
01	0.207	0.202	0.387	0.205
02	0.199	0.201	0.392	0.208
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	0.852	0.0	0.148
10	0.248	0.139	0.227	0.386
11	0.251	0.177	0.204	0.367
12	0.265	0.22	0.236	0.278

PWM

	A	C	G	T
01	-0.189	-0.213	0.435	-0.2
02	-0.227	-0.218	0.449	-0.184
03	-6.522	-6.522	1.385	-6.522
04	-6.522	-6.522	-6.522	1.385
05	-6.522	-6.522	1.385	-6.522
06	-6.522	-6.522	1.385	-6.522
07	-6.522	-6.522	-6.522	1.385
08	-6.522	1.385	-6.522	-6.522
09	-6.522	1.225	-6.522	-0.522
10	-0.007	-0.589	-0.098	0.435
11	0.005	-0.342	-0.203	0.384
12	0.059	-0.126	-0.057	0.107

Standard thresholds

P-value	Threshold
0.001	1.07272
0.0005	1.72357
0.0001	7.325945