GMEB1.H12INVITRO.1.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GMEB1.H12INVITRO.1.P.C
Gene (human)	GMEB1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gmeb1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	14
Consensus	bdRCGTShbbRCSb
GC content	65.87%
Information content (bits; total / per base)	10.158 / 0.726
Data sources	ChIP-Seq
Aligned words	999

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	0.868	0.755	0.776	0.75	0.776	2.519	2.665	88.638	113.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.796	0.763	0.751	0.719	0.693	0.67
Overall, 2 experiments	best	0.956	0.933	0.897	0.868	0.811	0.786
Methyl HT-SELEX, 1 experiments	median	0.636	0.593	0.604	0.571	0.575	0.554
Methyl HT-SELEX, 1 experiments	best	0.636	0.593	0.604	0.571	0.575	0.554
Non-Methyl HT-SELEX, 1 experiments	median	0.956	0.933	0.897	0.868	0.811	0.786
Non-Methyl HT-SELEX, 1 experiments	best	0.956	0.933	0.897	0.868	0.811	0.786

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.69	0.072	0.221	0.282

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.H12INVITRO.1.P.C.pcm
PWM	GMEB1.H12INVITRO.1.P.C.pwm
PFM	GMEB1.H12INVITRO.1.P.C.pfm
Alignment	GMEB1.H12INVITRO.1.P.C.words.tsv
Threshold to P-value map	GMEB1.H12INVITRO.1.P.C.thr
Motif in other formats
JASPAR format	GMEB1.H12INVITRO.1.P.C_jaspar_format.txt
MEME format	GMEB1.H12INVITRO.1.P.C_meme_format.meme
Transfac format	GMEB1.H12INVITRO.1.P.C_transfac_format.txt
Homer format	GMEB1.H12INVITRO.1.P.C_homer_format_0.001.txt GMEB1.H12INVITRO.1.P.C_homer_format_0.0005.txt GMEB1.H12INVITRO.1.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	68.0	327.0	247.0	357.0
02	121.0	80.0	339.0	459.0
03	393.0	38.0	540.0	28.0
04	28.0	933.0	6.0	32.0
05	9.0	18.0	944.0	28.0
06	10.0	10.0	27.0	952.0
07	78.0	509.0	382.0	30.0
08	507.0	311.0	60.0	121.0
09	31.0	351.0	451.0	166.0
10	92.0	424.0	181.0	302.0
11	213.0	62.0	645.0	79.0
12	55.0	810.0	42.0	92.0
13	36.0	151.0	720.0	92.0
14	36.0	458.0	147.0	358.0

PFM

	A	C	G	T
01	0.068	0.327	0.247	0.357
02	0.121	0.08	0.339	0.459
03	0.393	0.038	0.541	0.028
04	0.028	0.934	0.006	0.032
05	0.009	0.018	0.945	0.028
06	0.01	0.01	0.027	0.953
07	0.078	0.51	0.382	0.03
08	0.508	0.311	0.06	0.121
09	0.031	0.351	0.451	0.166
10	0.092	0.424	0.181	0.302
11	0.213	0.062	0.646	0.079
12	0.055	0.811	0.042	0.092
13	0.036	0.151	0.721	0.092
14	0.036	0.458	0.147	0.358

PWM

	A	C	G	T
01	-1.283	0.268	-0.011	0.355
02	-0.717	-1.124	0.304	0.605
03	0.451	-1.845	0.767	-2.135
04	-2.135	1.313	-3.483	-2.009
05	-3.155	-2.545	1.325	-2.135
06	-3.065	-3.065	-2.17	1.333
07	-1.149	0.708	0.423	-2.07
08	0.705	0.218	-1.405	-0.717
09	-2.039	0.338	0.588	-0.405
10	-0.987	0.526	-0.319	0.189
11	-0.158	-1.373	0.945	-1.136
12	-1.489	1.172	-1.749	-0.987
13	-1.897	-0.499	1.054	-0.987
14	-1.897	0.603	-0.525	0.358

Standard thresholds

P-value	Threshold
0.001	4.68291
0.0005	5.52661
0.0001	7.25216