RUNX2.H12INVITRO.1.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	RUNX2.H12INVITRO.1.S.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	1
Quality	B

Motif length	10
Consensus	ndYGYGGTdd
GC content	52.91%
Information content (bits; total / per base)	9.481 / 0.948
Data sources	HT-SELEX
Aligned words	9410

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)	0.894	0.939	0.78	0.859	0.856	0.897	2.666	2.927	160.121	303.854
Mouse	16 (101)	0.883	0.931	0.78	0.859	0.841	0.891	2.58	2.971	164.018	312.013

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.859	0.831	0.722	0.711	0.626	0.633
Overall, 3 experiments	best	0.969	0.951	0.932	0.906	0.838	0.822
Methyl HT-SELEX, 1 experiments	median	0.969	0.951	0.932	0.906	0.838	0.822
Methyl HT-SELEX, 1 experiments	best	0.969	0.951	0.932	0.906	0.838	0.822
Non-Methyl HT-SELEX, 2 experiments	median	0.81	0.778	0.688	0.675	0.607	0.611
Non-Methyl HT-SELEX, 2 experiments	best	0.859	0.831	0.722	0.711	0.626	0.633

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	4.384	3.974	0.234	0.208

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.1.S.B.pcm
PWM	RUNX2.H12INVITRO.1.S.B.pwm
PFM	RUNX2.H12INVITRO.1.S.B.pfm
Alignment	RUNX2.H12INVITRO.1.S.B.words.tsv
Threshold to P-value map	RUNX2.H12INVITRO.1.S.B.thr
Motif in other formats
JASPAR format	RUNX2.H12INVITRO.1.S.B_jaspar_format.txt
MEME format	RUNX2.H12INVITRO.1.S.B_meme_format.meme
Transfac format	RUNX2.H12INVITRO.1.S.B_transfac_format.txt
Homer format	RUNX2.H12INVITRO.1.S.B_homer_format_0.001.txt RUNX2.H12INVITRO.1.S.B_homer_format_0.0005.txt RUNX2.H12INVITRO.1.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2347.25	1764.25	2117.25	3181.25
02	1968.5	1356.5	1812.5	4272.5
03	692.0	1210.0	554.0	6954.0
04	162.0	1.0	9115.0	132.0
05	265.0	6591.0	0.0	2554.0
06	0.0	0.0	9405.0	5.0
07	11.0	34.0	9315.0	50.0
08	280.0	45.0	518.0	8567.0
09	1389.25	1200.25	1589.25	5231.25
10	3297.0	1145.0	2013.0	2955.0

PFM

	A	C	G	T
01	0.249	0.187	0.225	0.338
02	0.209	0.144	0.193	0.454
03	0.074	0.129	0.059	0.739
04	0.017	0.0	0.969	0.014
05	0.028	0.7	0.0	0.271
06	0.0	0.0	0.999	0.001
07	0.001	0.004	0.99	0.005
08	0.03	0.005	0.055	0.91
09	0.148	0.128	0.169	0.556
10	0.35	0.122	0.214	0.314

PWM

	A	C	G	T
01	-0.002	-0.287	-0.105	0.302
02	-0.178	-0.55	-0.26	0.596
03	-1.221	-0.664	-1.443	1.083
04	-2.663	-6.574	1.354	-2.864
05	-2.176	1.03	-6.937	0.082
06	-6.937	-6.937	1.385	-5.778
07	-5.177	-4.173	1.375	-3.807
08	-2.121	-3.908	-1.51	1.292
09	-0.526	-0.672	-0.392	0.799
10	0.337	-0.719	-0.156	0.228

Standard thresholds

P-value	Threshold
0.001	5.037325
0.0005	5.949765
0.0001	7.462125