GMEB1.H12INVIVO.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GMEB1.H12INVIVO.0.P.C
Gene (human)	GMEB1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gmeb1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	9
Consensus	bKGCGTSvb
GC content	63.67%
Information content (bits; total / per base)	8.972 / 0.997
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	1 (7)	0.846	0.865	0.739	0.756	0.73	0.744	1.884	1.956	70.469	99.444

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.782	0.738	0.759	0.717	0.72	0.687
Overall, 2 experiments	best	0.935	0.894	0.912	0.867	0.865	0.822
Methyl HT-SELEX, 1 experiments	median	0.63	0.582	0.605	0.567	0.575	0.552
Methyl HT-SELEX, 1 experiments	best	0.63	0.582	0.605	0.567	0.575	0.552
Non-Methyl HT-SELEX, 1 experiments	median	0.935	0.894	0.912	0.867	0.865	0.822
Non-Methyl HT-SELEX, 1 experiments	best	0.935	0.894	0.912	0.867	0.865	0.822

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.754	0.116	0.381	0.41

TF superclass	alpha-Helices exposed by beta-structures {5} (TFClass)
TF class	SAND domain factors {5.3} (TFClass)
TF family	GMEB {5.3.3} (TFClass)
TF subfamily	GMEB {5.3.3.1} (TFClass)
TFClass ID	TFClass: 5.3.3.1.1
HGNC	HGNC:4370
MGI	MGI:2135604
EntrezGene (human)	GeneID:10691 (SSTAR profile)
EntrezGene (mouse)	GeneID:56809 (SSTAR profile)
UniProt ID (human)	GMEB1_HUMAN
UniProt ID (mouse)	GMEB1_MOUSE
UniProt AC (human)	Q9Y692 (TFClass)
UniProt AC (mouse)	Q9JL60 (TFClass)
GRECO-DB-TF	yes

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

PCM	GMEB1.H12INVIVO.0.P.C.pcm
PWM	GMEB1.H12INVIVO.0.P.C.pwm
PFM	GMEB1.H12INVIVO.0.P.C.pfm
Alignment	GMEB1.H12INVIVO.0.P.C.words.tsv
Threshold to P-value map	GMEB1.H12INVIVO.0.P.C.thr
Motif in other formats
JASPAR format	GMEB1.H12INVIVO.0.P.C_jaspar_format.txt
MEME format	GMEB1.H12INVIVO.0.P.C_meme_format.meme
Transfac format	GMEB1.H12INVIVO.0.P.C_transfac_format.txt
Homer format	GMEB1.H12INVIVO.0.P.C_homer_format_0.001.txt GMEB1.H12INVIVO.0.P.C_homer_format_0.0005.txt GMEB1.H12INVIVO.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	19.0	376.0	343.0	262.0
02	138.0	3.0	150.0	709.0
03	274.0	9.0	709.0	8.0
04	14.0	976.0	4.0	6.0
05	5.0	8.0	978.0	9.0
06	3.0	1.0	5.0	991.0
07	61.0	439.0	487.0	13.0
08	468.0	340.0	114.0	78.0
09	52.0	315.0	473.0	160.0

PFM

	A	C	G	T
01	0.019	0.376	0.343	0.262
02	0.138	0.003	0.15	0.709
03	0.274	0.009	0.709	0.008
04	0.014	0.976	0.004	0.006
05	0.005	0.008	0.978	0.009
06	0.003	0.001	0.005	0.991
07	0.061	0.439	0.487	0.013
08	0.468	0.34	0.114	0.078
09	0.052	0.315	0.473	0.16

PWM

	A	C	G	T
01	-2.497	0.406	0.314	0.047
02	-0.589	-3.975	-0.506	1.038
03	0.091	-3.156	1.038	-3.253
04	-2.773	1.357	-3.783	-3.484
05	-3.622	-3.253	1.359	-3.156
06	-3.975	-4.525	-3.622	1.372
07	-1.39	0.56	0.663	-2.839
08	0.624	0.306	-0.777	-1.15
09	-1.544	0.23	0.634	-0.442

Standard thresholds

P-value	Threshold
0.001	5.272135
0.0005	6.110105
0.0001	7.383095