GMEB1.H12INVITRO.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GMEB1.H12INVITRO.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	10
Consensus	bbKGCGTSMb
GC content	63.52%
Information content (bits; total / per base)	9.106 / 0.911
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)	0.836	0.856	0.728	0.746	0.723	0.742	1.88	1.966	76.337	106.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.779	0.739	0.755	0.716	0.711	0.682
Overall, 2 experiments	best	0.938	0.902	0.915	0.872	0.857	0.819
Methyl HT-SELEX, 1 experiments	median	0.621	0.575	0.595	0.561	0.565	0.546
Methyl HT-SELEX, 1 experiments	best	0.621	0.575	0.595	0.561	0.565	0.546
Non-Methyl HT-SELEX, 1 experiments	median	0.938	0.902	0.915	0.872	0.857	0.819
Non-Methyl HT-SELEX, 1 experiments	best	0.938	0.902	0.915	0.872	0.857	0.819

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.726	0.076	0.241	0.308

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.0.P.C.pcm
PWM	GMEB1.H12INVITRO.0.P.C.pwm
PFM	GMEB1.H12INVITRO.0.P.C.pfm
Alignment	GMEB1.H12INVITRO.0.P.C.words.tsv
Threshold to P-value map	GMEB1.H12INVITRO.0.P.C.thr
Motif in other formats
JASPAR format	GMEB1.H12INVITRO.0.P.C_jaspar_format.txt
MEME format	GMEB1.H12INVITRO.0.P.C_meme_format.meme
Transfac format	GMEB1.H12INVITRO.0.P.C_transfac_format.txt
Homer format	GMEB1.H12INVITRO.0.P.C_homer_format_0.001.txt GMEB1.H12INVITRO.0.P.C_homer_format_0.0005.txt GMEB1.H12INVITRO.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	151.0	478.0	207.0	164.0
02	18.0	361.0	294.0	327.0
03	58.0	7.0	233.0	702.0
04	290.0	4.0	701.0	5.0
05	24.0	962.0	10.0	4.0
06	8.0	6.0	951.0	35.0
07	3.0	3.0	5.0	989.0
08	60.0	484.0	440.0	16.0
09	517.0	346.0	64.0	73.0
10	40.0	367.0	429.0	164.0

PFM

	A	C	G	T
01	0.151	0.478	0.207	0.164
02	0.018	0.361	0.294	0.327
03	0.058	0.007	0.233	0.702
04	0.29	0.004	0.701	0.005
05	0.024	0.962	0.01	0.004
06	0.008	0.006	0.951	0.035
07	0.003	0.003	0.005	0.989
08	0.06	0.484	0.44	0.016
09	0.517	0.346	0.064	0.073
10	0.04	0.367	0.429	0.164

PWM

	A	C	G	T
01	-0.5	0.645	-0.187	-0.418
02	-2.546	0.365	0.161	0.267
03	-1.439	-3.362	-0.07	1.028
04	0.147	-3.783	1.027	-3.622
05	-2.281	1.342	-3.066	-3.783
06	-3.253	-3.484	1.331	-1.925
07	-3.975	-3.975	-3.622	1.37
08	-1.406	0.657	0.562	-2.653
09	0.723	0.323	-1.343	-1.215
10	-1.797	0.382	0.537	-0.418

Standard thresholds

P-value	Threshold
0.001	5.037705
0.0005	5.92773
0.0001	7.52584