GATA2.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA2.H12CORE.0.PSM.A
Gene (human)	GATA2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gata2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	dvWGATAASv
GC content	38.77%
Information content (bits; total / per base)	10.42 / 1.042
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1010

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	41 (254)	0.86	0.949	0.733	0.888	0.84	0.931	2.635	3.524	201.134	335.824
Mouse	23 (136)	0.822	0.955	0.706	0.896	0.791	0.942	2.47	3.671	174.486	340.523

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.945	0.905	0.926	0.884	0.9	0.854
Overall, 2 experiments	best	0.946	0.905	0.929	0.887	0.901	0.856
Methyl HT-SELEX, 1 experiments	median	0.946	0.905	0.929	0.887	0.901	0.856
Methyl HT-SELEX, 1 experiments	best	0.946	0.905	0.929	0.887	0.901	0.856
Non-Methyl HT-SELEX, 1 experiments	median	0.945	0.904	0.924	0.881	0.899	0.852
Non-Methyl HT-SELEX, 1 experiments	best	0.945	0.904	0.924	0.881	0.899	0.852

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.885	2.973	0.226	0.101

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.679	0.317	0.641	0.452

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	Other C4 zinc finger-type factors {2.2} (TFClass)
TF family	C4-GATA-related {2.2.1} (TFClass)
TF subfamily	GATA double {2.2.1.1} (TFClass)
TFClass ID	TFClass: 2.2.1.1.2
HGNC	HGNC:4171
MGI	MGI:95662
EntrezGene (human)	GeneID:2624 (SSTAR profile)
EntrezGene (mouse)	GeneID:14461 (SSTAR profile)
UniProt ID (human)	GATA2_HUMAN
UniProt ID (mouse)	GATA2_MOUSE
UniProt AC (human)	P23769 (TFClass)
UniProt AC (mouse)	O09100 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	41 human, 23 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	GATA2.H12CORE.0.PSM.A.pcm
PWM	GATA2.H12CORE.0.PSM.A.pwm
PFM	GATA2.H12CORE.0.PSM.A.pfm
Alignment	GATA2.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	GATA2.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	GATA2.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	GATA2.H12CORE.0.PSM.A_meme_format.meme
Transfac format	GATA2.H12CORE.0.PSM.A_transfac_format.txt
Homer format	GATA2.H12CORE.0.PSM.A_homer_format_0.001.txt GATA2.H12CORE.0.PSM.A_homer_format_0.0005.txt GATA2.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	302.0	158.0	385.0	165.0
02	160.0	411.0	353.0	86.0
03	652.0	21.0	7.0	330.0
04	1.0	5.0	1002.0	2.0
05	1006.0	1.0	2.0	1.0
06	3.0	4.0	0.0	1003.0
07	954.0	13.0	9.0	34.0
08	825.0	18.0	129.0	38.0
09	106.0	267.0	579.0	58.0
10	390.0	200.0	352.0	68.0

PFM

	A	C	G	T
01	0.299	0.156	0.381	0.163
02	0.158	0.407	0.35	0.085
03	0.646	0.021	0.007	0.327
04	0.001	0.005	0.992	0.002
05	0.996	0.001	0.002	0.001
06	0.003	0.004	0.0	0.993
07	0.945	0.013	0.009	0.034
08	0.817	0.018	0.128	0.038
09	0.105	0.264	0.573	0.057
10	0.386	0.198	0.349	0.067

PWM

	A	C	G	T
01	0.178	-0.465	0.419	-0.422
02	-0.452	0.485	0.333	-1.064
03	0.944	-2.415	-3.372	0.266
04	-4.534	-3.632	1.373	-4.222
05	1.377	-4.534	-4.222	-4.534
06	-3.984	-3.793	-4.99	1.374
07	1.324	-2.848	-3.165	-1.962
08	1.179	-2.556	-0.665	-1.856
09	-0.859	0.055	0.826	-1.448
10	0.432	-0.231	0.33	-1.294

Standard thresholds

P-value	Threshold
0.001	4.61218
0.0005	5.66498
0.0001	7.698665