RUNX2.H14INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RUNX2.H14INVIVO.0.P.B
Gene (human)	RUNX2 (GeneCards)
Gene synonyms (human)	AML3, CBFA1, OSF2, PEBP2A
Gene (mouse)	Runx2
Gene synonyms (mouse)	Aml3, Cbfa1, Osf2, Pebp2a
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	11
Consensus	nnYTGYGGTYd
GC content	53.93%
Information content (bits; total / per base)	10.944 / 0.995
Data sources	ChIP-Seq
Aligned words	1000
Previous names	RUNX2.H12INVIVO.0.P.B

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	4 (26)	0.907	0.948	0.803	0.893	0.894	0.928	3.208	3.609	167.5	306.509
Mouse	16 (101)	0.9	0.949	0.805	0.889	0.886	0.933	3.207	3.687	196.921	331.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.834	0.785	0.701	0.684	0.604	0.613
Overall, 3 experiments	best	0.97	0.95	0.915	0.893	0.797	0.789
Methyl HT-SELEX, 1 experiments	median	0.97	0.95	0.915	0.893	0.797	0.789
Methyl HT-SELEX, 1 experiments	best	0.97	0.95	0.915	0.893	0.797	0.789
Non-Methyl HT-SELEX, 2 experiments	median	0.785	0.738	0.668	0.651	0.587	0.592
Non-Methyl HT-SELEX, 2 experiments	best	0.834	0.785	0.701	0.684	0.604	0.613

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.88	3.191	0.268	0.162

TF superclass	Immunoglobulin fold {6} (TFClass)
TF class	Runt domain factors {6.4} (TFClass)
TF family	Runt-related {6.4.1} (TFClass)
TF subfamily	{6.4.1.0} (TFClass)
TFClass ID	TFClass: 6.4.1.0.1
HGNC	HGNC:10472
MGI	MGI:99829
EntrezGene (human)	GeneID:860 (SSTAR profile)
EntrezGene (mouse)	GeneID:12393 (SSTAR profile)
UniProt ID (human)	RUNX2_HUMAN
UniProt ID (mouse)	RUNX2_MOUSE
UniProt AC (human)	Q13950 (TFClass)
UniProt AC (mouse)	Q08775 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	4 human, 16 mouse
HT-SELEX	2
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	RUNX2.H14INVIVO.0.P.B.pcm
PWM	RUNX2.H14INVIVO.0.P.B.pwm
PFM	RUNX2.H14INVIVO.0.P.B.pfm
Threshold to P-value map	RUNX2.H14INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	RUNX2.H14INVIVO.0.P.B_jaspar_format.txt
MEME format	RUNX2.H14INVIVO.0.P.B_meme_format.meme
Transfac format	RUNX2.H14INVIVO.0.P.B_transfac_format.txt
Homer format	RUNX2.H14INVIVO.0.P.B_homer_format_0.001.txt RUNX2.H14INVIVO.0.P.B_homer_format_0.0005.txt RUNX2.H14INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	157.0	236.0	367.0	240.0
02	129.0	254.0	310.0	307.0
03	65.0	543.0	60.0	332.0
04	17.0	7.0	20.0	956.0
05	4.0	15.0	980.0	1.0
06	29.0	352.0	5.0	614.0
07	1.0	1.0	997.0	1.0
08	0.0	1.0	996.0	3.0
09	4.0	98.0	41.0	857.0
10	46.0	301.0	79.0	574.0
11	370.0	51.0	218.0	361.0

PFM

	A	C	G	T
01	0.157	0.236	0.367	0.24
02	0.129	0.254	0.31	0.307
03	0.065	0.543	0.06	0.332
04	0.017	0.007	0.02	0.956
05	0.004	0.015	0.98	0.001
06	0.029	0.352	0.005	0.614
07	0.001	0.001	0.997	0.001
08	0.0	0.001	0.996	0.003
09	0.004	0.098	0.041	0.857
10	0.046	0.301	0.079	0.574
11	0.37	0.051	0.218	0.361

PWM

	A	C	G	T
01	-0.461	-0.057	0.382	-0.041
02	-0.655	0.016	0.214	0.204
03	-1.328	0.772	-1.406	0.282
04	-2.598	-3.362	-2.45	1.336
05	-3.783	-2.711	1.361	-4.525
06	-2.103	0.34	-3.622	0.894
07	-4.525	-4.525	1.378	-4.525
08	-4.982	-4.525	1.377	-3.975
09	-3.783	-0.926	-1.774	1.227
10	-1.663	0.184	-1.137	0.827
11	0.39	-1.563	-0.136	0.365

Standard thresholds

P-value	Threshold
0.001	4.39682
0.0005	5.475445
0.0001	7.55362