GLI2.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GLI2.H12INVIVO.0.PSM.A
Gene (human)	GLI2 (GeneCards)
Gene synonyms (human)	THP
Gene (mouse)	Gli2
Gene synonyms (mouse)	Thp
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	bSYGGGTGGYCb
GC content	70.19%
Information content (bits; total / per base)	13.392 / 1.116
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1000

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	5 (17)	0.921	0.953	0.848	0.912	0.918	0.948	3.865	4.541	39.018	241.678

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.998	0.997	0.995	0.993	0.969	0.965
Overall, 4 experiments	best	1.0	0.999	0.999	0.998	0.997	0.996
Methyl HT-SELEX, 1 experiments	median	0.999	0.999	0.999	0.998	0.994	0.992
Methyl HT-SELEX, 1 experiments	best	0.999	0.999	0.999	0.998	0.994	0.992
Non-Methyl HT-SELEX, 3 experiments	median	0.997	0.995	0.992	0.988	0.943	0.938
Non-Methyl HT-SELEX, 3 experiments	best	1.0	0.999	0.999	0.998	0.997	0.996

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: 2.3.3.1.2
HGNC	HGNC:4318
MGI	MGI:95728
EntrezGene (human)	GeneID:2736 (SSTAR profile)
EntrezGene (mouse)	GeneID:14633 (SSTAR profile)
UniProt ID (human)	GLI2_HUMAN
UniProt ID (mouse)	GLI2_MOUSE
UniProt AC (human)	P10070 (TFClass)
UniProt AC (mouse)	Q0VGT2 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 5 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	GLI2.H12INVIVO.0.PSM.A.pcm
PWM	GLI2.H12INVIVO.0.PSM.A.pwm
PFM	GLI2.H12INVIVO.0.PSM.A.pfm
Alignment	GLI2.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	GLI2.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	GLI2.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	GLI2.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	GLI2.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	GLI2.H12INVIVO.0.PSM.A_homer_format_0.001.txt GLI2.H12INVIVO.0.PSM.A_homer_format_0.0005.txt GLI2.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	55.0	428.0	237.0	280.0
02	36.0	464.0	412.0	88.0
03	66.0	136.0	20.0	778.0
04	16.0	47.0	912.0	25.0
05	3.0	1.0	856.0	140.0
06	1.0	6.0	991.0	2.0
07	114.0	60.0	25.0	801.0
08	2.0	1.0	994.0	3.0
09	5.0	3.0	976.0	16.0
10	3.0	218.0	159.0	620.0
11	44.0	892.0	41.0	23.0
12	86.0	407.0	137.0	370.0

PFM

	A	C	G	T
01	0.055	0.428	0.237	0.28
02	0.036	0.464	0.412	0.088
03	0.066	0.136	0.02	0.778
04	0.016	0.047	0.912	0.025
05	0.003	0.001	0.856	0.14
06	0.001	0.006	0.991	0.002
07	0.114	0.06	0.025	0.801
08	0.002	0.001	0.994	0.003
09	0.005	0.003	0.976	0.016
10	0.003	0.218	0.159	0.62
11	0.044	0.892	0.041	0.023
12	0.086	0.407	0.137	0.37

PWM

	A	C	G	T
01	-1.49	0.535	-0.053	0.113
02	-1.898	0.615	0.497	-1.032
03	-1.313	-0.603	-2.45	1.131
04	-2.653	-1.642	1.289	-2.243
05	-3.975	-4.525	1.226	-0.574
06	-4.525	-3.484	1.372	-4.213
07	-0.777	-1.406	-2.243	1.16
08	-4.213	-4.525	1.375	-3.975
09	-3.622	-3.975	1.357	-2.653
10	-3.975	-0.136	-0.449	0.904
11	-1.706	1.267	-1.774	-2.32
12	-1.054	0.485	-0.596	0.39

Standard thresholds

P-value	Threshold
0.001	3.53527
0.0005	4.66288
0.0001	7.01802