GLIS1.H12RSNP.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GLIS1.H12RSNP.1.P.B
Gene (human)	GLIS1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Glis1
Gene synonyms (mouse)	Gli5
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	11
Consensus	YSCTGGGRGRb
GC content	73.84%
Information content (bits; total / per base)	11.075 / 1.007
Data sources	ChIP-Seq
Aligned words	1001

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)	0.778	0.819	0.622	0.688	0.684	0.715	1.733	1.834	53.41	131.699

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.863	0.805	0.79	0.747	0.697	0.681
Overall, 2 experiments	best	0.915	0.864	0.877	0.824	0.789	0.754
Methyl HT-SELEX, 1 experiments	median	0.915	0.864	0.877	0.824	0.789	0.754
Methyl HT-SELEX, 1 experiments	best	0.915	0.864	0.877	0.824	0.789	0.754
Non-Methyl HT-SELEX, 1 experiments	median	0.811	0.746	0.704	0.671	0.605	0.607
Non-Methyl HT-SELEX, 1 experiments	best	0.811	0.746	0.704	0.671	0.605	0.607

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.603	0.195	0.292	0.225

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.1.P.B.pcm
PWM	GLIS1.H12RSNP.1.P.B.pwm
PFM	GLIS1.H12RSNP.1.P.B.pfm
Alignment	GLIS1.H12RSNP.1.P.B.words.tsv
Threshold to P-value map	GLIS1.H12RSNP.1.P.B.thr
Motif in other formats
JASPAR format	GLIS1.H12RSNP.1.P.B_jaspar_format.txt
MEME format	GLIS1.H12RSNP.1.P.B_meme_format.meme
Transfac format	GLIS1.H12RSNP.1.P.B_transfac_format.txt
Homer format	GLIS1.H12RSNP.1.P.B_homer_format_0.001.txt GLIS1.H12RSNP.1.P.B_homer_format_0.0005.txt GLIS1.H12RSNP.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	68.0	579.0	109.0	245.0
02	43.0	679.0	141.0	138.0
03	16.0	803.0	136.0	46.0
04	64.0	50.0	7.0	880.0
05	11.0	5.0	965.0	20.0
06	6.0	5.0	907.0	83.0
07	18.0	11.0	960.0	12.0
08	421.0	3.0	494.0	83.0
09	119.0	8.0	854.0	20.0
10	148.0	62.0	671.0	120.0
11	51.0	380.0	302.0	268.0

PFM

	A	C	G	T
01	0.068	0.578	0.109	0.245
02	0.043	0.678	0.141	0.138
03	0.016	0.802	0.136	0.046
04	0.064	0.05	0.007	0.879
05	0.011	0.005	0.964	0.02
06	0.006	0.005	0.906	0.083
07	0.018	0.011	0.959	0.012
08	0.421	0.003	0.494	0.083
09	0.119	0.008	0.853	0.02
10	0.148	0.062	0.67	0.12
11	0.051	0.38	0.302	0.268

PWM

	A	C	G	T
01	-1.285	0.835	-0.822	-0.021
02	-1.729	0.994	-0.568	-0.59
03	-2.654	1.161	-0.604	-1.664
04	-1.344	-1.583	-3.363	1.253
05	-2.986	-3.623	1.345	-2.451
06	-3.485	-3.623	1.283	-1.09
07	-2.547	-2.986	1.339	-2.91
08	0.517	-3.976	0.677	-1.09
09	-0.736	-3.254	1.223	-2.451
10	-0.521	-1.375	0.982	-0.728
11	-1.564	0.415	0.187	0.068

Standard thresholds

P-value	Threshold
0.001	4.455615
0.0005	5.365
0.0001	7.27864