GMEB2.H12INVITRO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GMEB2.H12INVITRO.2.SM.B
Gene (human)	GMEB2 (GeneCards)
Gene synonyms (human)	KIAA1269
Gene (mouse)	Gmeb2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	12
Consensus	bdACGTAASGhn
GC content	47.67%
Information content (bits; total / per base)	12.825 / 1.069
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	6387

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)	0.77	0.782	0.627	0.632	0.65	0.666	1.641	1.686	51.62	55.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.911	0.873	0.837	0.799	0.724	0.71
Overall, 5 experiments	best	0.996	0.993	0.99	0.985	0.979	0.97
Methyl HT-SELEX, 1 experiments	median	0.992	0.987	0.982	0.973	0.962	0.947
Methyl HT-SELEX, 1 experiments	best	0.992	0.987	0.982	0.973	0.962	0.947
Non-Methyl HT-SELEX, 4 experiments	median	0.818	0.778	0.741	0.709	0.656	0.645
Non-Methyl HT-SELEX, 4 experiments	best	0.996	0.993	0.99	0.985	0.979	0.97

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: 5.3.3.1.2
HGNC	HGNC:4371
MGI	MGI:2652836
EntrezGene (human)	GeneID:26205 (SSTAR profile)
EntrezGene (mouse)	GeneID:229004 (SSTAR profile)
UniProt ID (human)	GMEB2_HUMAN
UniProt ID (mouse)	GMEB2_MOUSE
UniProt AC (human)	Q9UKD1 (TFClass)
UniProt AC (mouse)	P58929 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	1

PCM	GMEB2.H12INVITRO.2.SM.B.pcm
PWM	GMEB2.H12INVITRO.2.SM.B.pwm
PFM	GMEB2.H12INVITRO.2.SM.B.pfm
Alignment	GMEB2.H12INVITRO.2.SM.B.words.tsv
Threshold to P-value map	GMEB2.H12INVITRO.2.SM.B.thr
Motif in other formats
JASPAR format	GMEB2.H12INVITRO.2.SM.B_jaspar_format.txt
MEME format	GMEB2.H12INVITRO.2.SM.B_meme_format.meme
Transfac format	GMEB2.H12INVITRO.2.SM.B_transfac_format.txt
Homer format	GMEB2.H12INVITRO.2.SM.B_homer_format_0.001.txt GMEB2.H12INVITRO.2.SM.B_homer_format_0.0005.txt GMEB2.H12INVITRO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	871.0	1188.0	1827.0	2501.0
02	1252.0	646.0	1373.0	3116.0
03	5822.0	0.0	565.0	0.0
04	0.0	6354.0	33.0	0.0
05	0.0	0.0	6387.0	0.0
06	0.0	133.0	0.0	6254.0
07	5126.0	194.0	1067.0	0.0
08	6294.0	0.0	93.0	0.0
09	70.0	3677.0	2031.0	609.0
10	257.0	656.0	5313.0	161.0
11	911.5	1686.5	576.5	3212.5
12	2290.25	1406.25	1332.25	1358.25

PFM

	A	C	G	T
01	0.136	0.186	0.286	0.392
02	0.196	0.101	0.215	0.488
03	0.912	0.0	0.088	0.0
04	0.0	0.995	0.005	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.021	0.0	0.979
07	0.803	0.03	0.167	0.0
08	0.985	0.0	0.015	0.0
09	0.011	0.576	0.318	0.095
10	0.04	0.103	0.832	0.025
11	0.143	0.264	0.09	0.503
12	0.359	0.22	0.209	0.213

PWM

	A	C	G	T
01	-0.605	-0.295	0.135	0.448
02	-0.243	-0.903	-0.151	0.668
03	1.293	-6.593	-1.036	-6.593
04	-6.593	1.38	-3.816	-6.593
05	-6.593	-6.593	1.385	-6.593
06	-6.593	-2.47	-6.593	1.364
07	1.165	-2.098	-0.402	-6.593
08	1.371	-6.593	-2.821	-6.593
09	-3.098	0.833	0.24	-0.962
10	-1.82	-0.888	1.201	-2.282
11	-0.56	0.055	-1.016	0.698
12	0.36	-0.127	-0.181	-0.162

Standard thresholds

P-value	Threshold
0.001	3.12129
0.0005	4.64536
0.0001	7.300635