GMEB2.H12INVIVO.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GMEB2.H12INVIVO.0.P.C
Gene (human)	GMEB2 (GeneCards)
Gene synonyms (human)	KIAA1269
Gene (mouse)	Gmeb2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	14
Consensus	bdRCGTShbbRYSb
GC content	67.5%
Information content (bits; total / per base)	10.254 / 0.732
Data sources	ChIP-Seq
Aligned words	1001

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)	0.853	0.859	0.749	0.771	0.746	0.768	2.435	2.556	141.319	148.377

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.83	0.784	0.742	0.705	0.654	0.641
Overall, 5 experiments	best	0.963	0.937	0.948	0.917	0.921	0.886
Methyl HT-SELEX, 1 experiments	median	0.952	0.917	0.935	0.897	0.906	0.864
Methyl HT-SELEX, 1 experiments	best	0.952	0.917	0.935	0.897	0.906	0.864
Non-Methyl HT-SELEX, 4 experiments	median	0.741	0.696	0.673	0.641	0.611	0.597
Non-Methyl HT-SELEX, 4 experiments	best	0.963	0.937	0.948	0.917	0.921	0.886

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.H12INVIVO.0.P.C.pcm
PWM	GMEB2.H12INVIVO.0.P.C.pwm
PFM	GMEB2.H12INVIVO.0.P.C.pfm
Alignment	GMEB2.H12INVIVO.0.P.C.words.tsv
Threshold to P-value map	GMEB2.H12INVIVO.0.P.C.thr
Motif in other formats
JASPAR format	GMEB2.H12INVIVO.0.P.C_jaspar_format.txt
MEME format	GMEB2.H12INVIVO.0.P.C_meme_format.meme
Transfac format	GMEB2.H12INVIVO.0.P.C_transfac_format.txt
Homer format	GMEB2.H12INVIVO.0.P.C_homer_format_0.001.txt GMEB2.H12INVIVO.0.P.C_homer_format_0.0005.txt GMEB2.H12INVIVO.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	69.0	363.0	225.0	344.0
02	123.0	73.0	360.0	445.0
03	369.0	15.0	606.0	11.0
04	14.0	960.0	9.0	18.0
05	9.0	20.0	962.0	10.0
06	28.0	5.0	56.0	912.0
07	64.0	503.0	423.0	11.0
08	504.0	320.0	72.0	105.0
09	38.0	351.0	465.0	147.0
10	70.0	466.0	166.0	299.0
11	204.0	61.0	631.0	105.0
12	45.0	784.0	50.0	122.0
13	51.0	191.0	661.0	98.0
14	54.0	494.0	168.0	285.0

PFM

	A	C	G	T
01	0.069	0.363	0.225	0.344
02	0.123	0.073	0.36	0.445
03	0.369	0.015	0.605	0.011
04	0.014	0.959	0.009	0.018
05	0.009	0.02	0.961	0.01
06	0.028	0.005	0.056	0.911
07	0.064	0.502	0.423	0.011
08	0.503	0.32	0.072	0.105
09	0.038	0.351	0.465	0.147
10	0.07	0.466	0.166	0.299
11	0.204	0.061	0.63	0.105
12	0.045	0.783	0.05	0.122
13	0.051	0.191	0.66	0.098
14	0.054	0.494	0.168	0.285

PWM

	A	C	G	T
01	-1.271	0.37	-0.106	0.316
02	-0.703	-1.215	0.362	0.573
03	0.386	-2.712	0.88	-2.986
04	-2.774	1.339	-3.157	-2.547
05	-3.157	-2.451	1.341	-3.067
06	-2.137	-3.623	-1.474	1.288
07	-1.344	0.695	0.522	-2.986
08	0.697	0.244	-1.229	-0.859
09	-1.847	0.336	0.616	-0.527
10	-1.256	0.619	-0.407	0.177
11	-0.203	-1.391	0.921	-0.859
12	-1.685	1.137	-1.583	-0.711
13	-1.564	-0.268	0.967	-0.927
14	-1.509	0.677	-0.395	0.129

Standard thresholds

P-value	Threshold
0.001	4.67776
0.0005	5.53716
0.0001	7.27981