RUNX2.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RUNX2.H12INVITRO.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	bYTGTGGTYdv
GC content	53.03%
Information content (bits; total / per base)	11.116 / 1.011
Data sources	ChIP-Seq
Aligned words	1007

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)	0.905	0.948	0.793	0.884	0.894	0.926	3.135	3.508	170.654	301.357
Mouse	16 (101)	0.896	0.946	0.799	0.884	0.88	0.929	3.167	3.618	192.495	327.553

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.83	0.776	0.707	0.684	0.611	0.615
Overall, 3 experiments	best	0.971	0.95	0.932	0.906	0.831	0.817
Methyl HT-SELEX, 1 experiments	median	0.971	0.95	0.932	0.906	0.831	0.817
Methyl HT-SELEX, 1 experiments	best	0.971	0.95	0.932	0.906	0.831	0.817
Non-Methyl HT-SELEX, 2 experiments	median	0.784	0.731	0.675	0.652	0.593	0.595
Non-Methyl HT-SELEX, 2 experiments	best	0.83	0.776	0.707	0.684	0.611	0.615

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.745	4.762	0.259	0.179

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.H12INVITRO.0.P.B.pcm
PWM	RUNX2.H12INVITRO.0.P.B.pwm
PFM	RUNX2.H12INVITRO.0.P.B.pfm
Alignment	RUNX2.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	RUNX2.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	RUNX2.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	RUNX2.H12INVITRO.0.P.B_meme_format.meme
Transfac format	RUNX2.H12INVITRO.0.P.B_transfac_format.txt
Homer format	RUNX2.H12INVITRO.0.P.B_homer_format_0.001.txt RUNX2.H12INVITRO.0.P.B_homer_format_0.0005.txt RUNX2.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	113.0	243.0	345.0	306.0
02	113.0	510.0	37.0	347.0
03	46.0	30.0	10.0	921.0
04	2.0	6.0	998.0	1.0
05	18.0	244.0	3.0	742.0
06	1.0	0.0	1006.0	0.0
07	0.0	1.0	1005.0	1.0
08	3.0	82.0	54.0	868.0
09	43.0	328.0	84.0	552.0
10	431.0	36.0	190.0	350.0
11	183.0	281.0	381.0	162.0

PFM

	A	C	G	T
01	0.112	0.241	0.343	0.304
02	0.112	0.506	0.037	0.345
03	0.046	0.03	0.01	0.915
04	0.002	0.006	0.991	0.001
05	0.018	0.242	0.003	0.737
06	0.001	0.0	0.999	0.0
07	0.0	0.001	0.998	0.001
08	0.003	0.081	0.054	0.862
09	0.043	0.326	0.083	0.548
10	0.428	0.036	0.189	0.348
11	0.182	0.279	0.378	0.161

PWM

	A	C	G	T
01	-0.793	-0.035	0.313	0.194
02	-0.793	0.703	-1.879	0.319
03	-1.67	-2.078	-3.073	1.292
04	-4.219	-3.49	1.372	-4.531
05	-2.553	-0.031	-3.982	1.076
06	-4.531	-4.988	1.38	-4.988
07	-4.988	-4.531	1.379	-4.531
08	-3.982	-1.108	-1.515	1.233
09	-1.735	0.263	-1.084	0.781
10	0.535	-1.905	-0.279	0.328
11	-0.316	0.109	0.412	-0.437

Standard thresholds

P-value	Threshold
0.001	4.366095
0.0005	5.48964
0.0001	7.53755