GLIS1.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GLIS1.H12RSNP.0.P.B
Gene (human)	GLIS1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Glis1
Gene synonyms (mouse)	Gli5
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	14
Consensus	SdShSYRGGRGGYv
GC content	72.38%
Information content (bits; total / per base)	11.943 / 0.853
Data sources	ChIP-Seq
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
Human	2 (12)	0.865	0.918	0.741	0.838	0.792	0.832	2.372	2.585	129.799	273.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.953	0.937	0.871	0.861	0.748	0.761
Overall, 2 experiments	best	0.991	0.986	0.972	0.962	0.87	0.868
Methyl HT-SELEX, 1 experiments	median	0.991	0.986	0.972	0.962	0.87	0.868
Methyl HT-SELEX, 1 experiments	best	0.991	0.986	0.972	0.962	0.87	0.868
Non-Methyl HT-SELEX, 1 experiments	median	0.914	0.887	0.77	0.761	0.627	0.654
Non-Methyl HT-SELEX, 1 experiments	best	0.914	0.887	0.77	0.761	0.627	0.654

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.708	0.4	0.592	0.491

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: 2.3.3.1.4
HGNC	HGNC:29525
MGI	MGI:2386723
EntrezGene (human)	GeneID:148979 (SSTAR profile)
EntrezGene (mouse)	GeneID:230587 (SSTAR profile)
UniProt ID (human)	GLIS1_HUMAN
UniProt ID (mouse)	GLIS1_MOUSE
UniProt AC (human)	Q8NBF1 (TFClass)
UniProt AC (mouse)	Q8K1M4 (TFClass)
GRECO-DB-TF	yes

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

PCM	GLIS1.H12RSNP.0.P.B.pcm
PWM	GLIS1.H12RSNP.0.P.B.pwm
PFM	GLIS1.H12RSNP.0.P.B.pfm
Alignment	GLIS1.H12RSNP.0.P.B.words.tsv
Threshold to P-value map	GLIS1.H12RSNP.0.P.B.thr
Motif in other formats
JASPAR format	GLIS1.H12RSNP.0.P.B_jaspar_format.txt
MEME format	GLIS1.H12RSNP.0.P.B_meme_format.meme
Transfac format	GLIS1.H12RSNP.0.P.B_transfac_format.txt
Homer format	GLIS1.H12RSNP.0.P.B_homer_format_0.001.txt GLIS1.H12RSNP.0.P.B_homer_format_0.0005.txt GLIS1.H12RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	110.0	688.0	187.0	15.0
02	212.0	137.0	237.0	414.0
03	40.0	737.0	114.0	109.0
04	172.0	344.0	60.0	424.0
05	8.0	415.0	553.0	24.0
06	15.0	626.0	13.0	346.0
07	340.0	4.0	470.0	186.0
08	10.0	3.0	947.0	40.0
09	1.0	3.0	991.0	5.0
10	477.0	4.0	470.0	49.0
11	13.0	3.0	983.0	1.0
12	123.0	15.0	814.0	48.0
13	11.0	478.0	164.0	347.0
14	200.0	468.0	205.0	127.0

PFM

	A	C	G	T
01	0.11	0.688	0.187	0.015
02	0.212	0.137	0.237	0.414
03	0.04	0.737	0.114	0.109
04	0.172	0.344	0.06	0.424
05	0.008	0.415	0.553	0.024
06	0.015	0.626	0.013	0.346
07	0.34	0.004	0.47	0.186
08	0.01	0.003	0.947	0.04
09	0.001	0.003	0.991	0.005
10	0.477	0.004	0.47	0.049
11	0.013	0.003	0.983	0.001
12	0.123	0.015	0.814	0.048
13	0.011	0.478	0.164	0.347
14	0.2	0.468	0.205	0.127

PWM

	A	C	G	T
01	-0.812	1.008	-0.288	-2.711
02	-0.164	-0.596	-0.053	0.502
03	-1.797	1.077	-0.777	-0.821
04	-0.371	0.317	-1.406	0.525
05	-3.253	0.504	0.79	-2.281
06	-2.711	0.914	-2.839	0.323
07	0.306	-3.783	0.628	-0.293
08	-3.066	-3.975	1.327	-1.797
09	-4.525	-3.975	1.372	-3.622
10	0.643	-3.783	0.628	-1.602
11	-2.839	-3.975	1.364	-4.525
12	-0.702	-2.711	1.176	-1.622
13	-2.985	0.645	-0.418	0.326
14	-0.221	0.624	-0.197	-0.671

Standard thresholds

P-value	Threshold
0.001	4.13331
0.0005	5.18251
0.0001	7.29971