GMEB1.H12RSNP.1.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GMEB1.H12RSNP.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	bdRCGTShbbRYSb
GC content	65.57%
Information content (bits; total / per base)	10.011 / 0.715
Data sources	ChIP-Seq
Aligned words	996

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)	0.845	0.867	0.753	0.775	0.751	0.777	2.511	2.657	84.824	115.119

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	0.957	0.934	0.899	0.869	0.813	0.788
Methyl HT-SELEX, 1 experiments	median	0.636	0.593	0.603	0.57	0.574	0.553
Methyl HT-SELEX, 1 experiments	best	0.636	0.593	0.603	0.57	0.574	0.553
Non-Methyl HT-SELEX, 1 experiments	median	0.957	0.934	0.899	0.869	0.813	0.788
Non-Methyl HT-SELEX, 1 experiments	best	0.957	0.934	0.899	0.869	0.813	0.788

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.701	0.079	0.275	0.333

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.H12RSNP.1.P.C.pcm
PWM	GMEB1.H12RSNP.1.P.C.pwm
PFM	GMEB1.H12RSNP.1.P.C.pfm
Alignment	GMEB1.H12RSNP.1.P.C.words.tsv
Threshold to P-value map	GMEB1.H12RSNP.1.P.C.thr
Motif in other formats
JASPAR format	GMEB1.H12RSNP.1.P.C_jaspar_format.txt
MEME format	GMEB1.H12RSNP.1.P.C_meme_format.meme
Transfac format	GMEB1.H12RSNP.1.P.C_transfac_format.txt
Homer format	GMEB1.H12RSNP.1.P.C_homer_format_0.001.txt GMEB1.H12RSNP.1.P.C_homer_format_0.0005.txt GMEB1.H12RSNP.1.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	75.0	340.0	254.0	327.0
02	155.0	74.0	304.0	463.0
03	393.0	24.0	553.0	26.0
04	38.0	915.0	6.0	37.0
05	6.0	22.0	946.0	22.0
06	10.0	14.0	23.0	949.0
07	78.0	510.0	386.0	22.0
08	499.0	302.0	70.0	125.0
09	31.0	384.0	415.0	166.0
10	75.0	445.0	165.0	311.0
11	200.0	79.0	598.0	119.0
12	52.0	797.0	40.0	107.0
13	26.0	164.0	706.0	100.0
14	28.0	453.0	154.0	361.0

PFM

	A	C	G	T
01	0.075	0.341	0.255	0.328
02	0.156	0.074	0.305	0.465
03	0.395	0.024	0.555	0.026
04	0.038	0.919	0.006	0.037
05	0.006	0.022	0.95	0.022
06	0.01	0.014	0.023	0.953
07	0.078	0.512	0.388	0.022
08	0.501	0.303	0.07	0.126
09	0.031	0.386	0.417	0.167
10	0.075	0.447	0.166	0.312
11	0.201	0.079	0.6	0.119
12	0.052	0.8	0.04	0.107
13	0.026	0.165	0.709	0.1
14	0.028	0.455	0.155	0.362

PWM

	A	C	G	T
01	-1.184	0.31	0.02	0.271
02	-0.47	-1.197	0.198	0.617
03	0.454	-2.277	0.794	-2.202
04	-1.842	1.296	-3.48	-1.868
05	-3.48	-2.358	1.33	-2.358
06	-3.063	-2.769	-2.317	1.333
07	-1.146	0.713	0.436	-2.358
08	0.692	0.192	-1.252	-0.682
09	-2.036	0.431	0.508	-0.402
10	-1.184	0.578	-0.408	0.221
11	-0.217	-1.133	0.872	-0.731
12	-1.54	1.159	-1.793	-0.836
13	-2.202	-0.414	1.038	-0.902
14	-2.132	0.595	-0.476	0.369

Standard thresholds

P-value	Threshold
0.001	4.72011
0.0005	5.55711
0.0001	7.26561