GMEB1.H12CORE.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GMEB1.H12CORE.2.SM.B
Gene (human)	GMEB1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gmeb1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	15
Consensus	nbKACGTAAnbnhvn
GC content	47.89%
Information content (bits; total / per base)	11.716 / 0.781
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	8164

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)	0.82	0.845	0.697	0.724	0.687	0.712	1.9	2.019	41.143	55.377

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.826	0.797	0.795	0.768	0.743	0.722
Overall, 2 experiments	best	0.985	0.978	0.963	0.949	0.893	0.877
Methyl HT-SELEX, 1 experiments	median	0.666	0.616	0.627	0.588	0.593	0.567
Methyl HT-SELEX, 1 experiments	best	0.666	0.616	0.627	0.588	0.593	0.567
Non-Methyl HT-SELEX, 1 experiments	median	0.985	0.978	0.963	0.949	0.893	0.877
Non-Methyl HT-SELEX, 1 experiments	best	0.985	0.978	0.963	0.949	0.893	0.877

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.687	0.146	0.468	0.359

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.H12CORE.2.SM.B.pcm
PWM	GMEB1.H12CORE.2.SM.B.pwm
PFM	GMEB1.H12CORE.2.SM.B.pfm
Alignment	GMEB1.H12CORE.2.SM.B.words.tsv
Threshold to P-value map	GMEB1.H12CORE.2.SM.B.thr
Motif in other formats
JASPAR format	GMEB1.H12CORE.2.SM.B_jaspar_format.txt
MEME format	GMEB1.H12CORE.2.SM.B_meme_format.meme
Transfac format	GMEB1.H12CORE.2.SM.B_transfac_format.txt
Homer format	GMEB1.H12CORE.2.SM.B_homer_format_0.001.txt GMEB1.H12CORE.2.SM.B_homer_format_0.0005.txt GMEB1.H12CORE.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1644.0	2652.0	1731.0	2137.0
02	800.25	1290.25	2173.25	3900.25
03	397.0	535.0	802.0	6430.0
04	6340.0	0.0	1824.0	0.0
05	0.0	8164.0	0.0	0.0
06	0.0	0.0	8164.0	0.0
07	0.0	1.0	0.0	8163.0
08	6074.0	1844.0	246.0	0.0
09	7909.0	128.0	127.0	0.0
10	1016.0	2599.0	2475.0	2074.0
11	868.0	2481.0	3104.0	1711.0
12	2674.0	1950.0	1429.0	2111.0
13	1948.0	3237.0	1453.0	1526.0
14	1342.0	2339.0	3284.0	1199.0
15	1289.0	2371.0	2246.0	2258.0

PFM

	A	C	G	T
01	0.201	0.325	0.212	0.262
02	0.098	0.158	0.266	0.478
03	0.049	0.066	0.098	0.788
04	0.777	0.0	0.223	0.0
05	0.0	1.0	0.0	0.0
06	0.0	0.0	1.0	0.0
07	0.0	0.0	0.0	1.0
08	0.744	0.226	0.03	0.0
09	0.969	0.016	0.016	0.0
10	0.124	0.318	0.303	0.254
11	0.106	0.304	0.38	0.21
12	0.328	0.239	0.175	0.259
13	0.239	0.396	0.178	0.187
14	0.164	0.287	0.402	0.147
15	0.158	0.29	0.275	0.277

PWM

	A	C	G	T
01	-0.216	0.262	-0.165	0.046
02	-0.935	-0.458	0.063	0.647
03	-1.633	-1.336	-0.932	1.147
04	1.133	-6.811	-0.112	-6.811
05	-6.811	1.385	-6.811	-6.811
06	-6.811	-6.811	1.385	-6.811
07	-6.811	-6.443	-6.811	1.385
08	1.09	-0.101	-2.108	-6.811
09	1.354	-2.753	-2.761	-6.811
10	-0.696	0.241	0.193	0.016
11	-0.854	0.195	0.419	-0.176
12	0.27	-0.046	-0.356	0.034
13	-0.047	0.461	-0.339	-0.29
14	-0.419	0.136	0.475	-0.531
15	-0.459	0.15	0.096	0.101

Standard thresholds

P-value	Threshold
0.001	3.92986
0.0005	5.36736
0.0001	7.62276