RUNX2.H12CORE.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RUNX2.H12CORE.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	13
Consensus	nnYTGTGGTYdvn
GC content	53.34%
Information content (bits; total / per base)	12.088 / 0.93
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	4 (26)	0.904	0.948	0.792	0.892	0.895	0.929	3.209	3.648	167.219	290.481
Mouse	16 (101)	0.896	0.947	0.802	0.882	0.884	0.933	3.226	3.698	188.469	311.237

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.832	0.779	0.702	0.682	0.608	0.613
Overall, 3 experiments	best	0.97	0.946	0.927	0.9	0.817	0.806
Methyl HT-SELEX, 1 experiments	median	0.97	0.946	0.927	0.9	0.817	0.806
Methyl HT-SELEX, 1 experiments	best	0.97	0.946	0.927	0.9	0.817	0.806
Non-Methyl HT-SELEX, 2 experiments	median	0.784	0.733	0.67	0.65	0.59	0.593
Non-Methyl HT-SELEX, 2 experiments	best	0.832	0.779	0.702	0.682	0.608	0.613

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	6.089	5.126	0.279	0.173

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

PCM	RUNX2.H12CORE.0.P.B.pcm
PWM	RUNX2.H12CORE.0.P.B.pwm
PFM	RUNX2.H12CORE.0.P.B.pfm
Alignment	RUNX2.H12CORE.0.P.B.words.tsv
Threshold to P-value map	RUNX2.H12CORE.0.P.B.thr
Motif in other formats
JASPAR format	RUNX2.H12CORE.0.P.B_jaspar_format.txt
MEME format	RUNX2.H12CORE.0.P.B_meme_format.meme
Transfac format	RUNX2.H12CORE.0.P.B_transfac_format.txt
Homer format	RUNX2.H12CORE.0.P.B_homer_format_0.001.txt RUNX2.H12CORE.0.P.B_homer_format_0.0005.txt RUNX2.H12CORE.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	143.0	239.0	370.0	248.0
02	117.0	299.0	276.0	308.0
03	62.0	577.0	40.0	321.0
04	17.0	13.0	8.0	962.0
05	0.0	1.0	996.0	3.0
06	8.0	249.0	2.0	741.0
07	4.0	2.0	992.0	2.0
08	0.0	4.0	996.0	0.0
09	1.0	48.0	27.0	924.0
10	30.0	280.0	61.0	629.0
11	361.0	51.0	132.0	456.0
12	160.0	301.0	386.0	153.0
13	173.0	314.0	270.0	243.0

PFM

	A	C	G	T
01	0.143	0.239	0.37	0.248
02	0.117	0.299	0.276	0.308
03	0.062	0.577	0.04	0.321
04	0.017	0.013	0.008	0.962
05	0.0	0.001	0.996	0.003
06	0.008	0.249	0.002	0.741
07	0.004	0.002	0.992	0.002
08	0.0	0.004	0.996	0.0
09	0.001	0.048	0.027	0.924
10	0.03	0.28	0.061	0.629
11	0.361	0.051	0.132	0.456
12	0.16	0.301	0.386	0.153
13	0.173	0.314	0.27	0.243

PWM

	A	C	G	T
01	-0.553	-0.045	0.39	-0.008
02	-0.752	0.178	0.098	0.207
03	-1.374	0.832	-1.797	0.248
04	-2.598	-2.839	-3.253	1.342
05	-4.982	-4.525	1.377	-3.975
06	-3.253	-0.004	-4.213	1.082
07	-3.783	-4.213	1.373	-4.213
08	-4.982	-3.783	1.377	-4.982
09	-4.525	-1.622	-2.171	1.302
10	-2.071	0.113	-1.39	0.919
11	0.365	-1.563	-0.633	0.598
12	-0.442	0.184	0.432	-0.487
13	-0.365	0.227	0.076	-0.028

Standard thresholds

P-value	Threshold
0.001	3.87246
0.0005	5.00536
0.0001	7.435665