GATA2.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA2.H12INVITRO.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	nWGATAAbvn
GC content	36.2%
Information content (bits; total / per base)	10.322 / 1.032
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	8388

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)	0.849	0.946	0.722	0.884	0.832	0.927	2.517	3.273	197.238	325.009
Mouse	23 (136)	0.811	0.953	0.68	0.897	0.77	0.933	2.236	3.288	175.963	331.155

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.948	0.913	0.933	0.893	0.904	0.862
Overall, 2 experiments	best	0.951	0.915	0.933	0.894	0.908	0.865
Methyl HT-SELEX, 1 experiments	median	0.951	0.915	0.933	0.894	0.9	0.859
Methyl HT-SELEX, 1 experiments	best	0.951	0.915	0.933	0.894	0.9	0.859
Non-Methyl HT-SELEX, 1 experiments	median	0.946	0.911	0.933	0.892	0.908	0.865
Non-Methyl HT-SELEX, 1 experiments	best	0.946	0.911	0.933	0.892	0.908	0.865

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.994	3.031	0.234	0.092

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.67	0.322	0.639	0.456

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.H12INVITRO.0.PSM.A.pcm
PWM	GATA2.H12INVITRO.0.PSM.A.pwm
PFM	GATA2.H12INVITRO.0.PSM.A.pfm
Alignment	GATA2.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	GATA2.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	GATA2.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	GATA2.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	GATA2.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	GATA2.H12INVITRO.0.PSM.A_homer_format_0.001.txt GATA2.H12INVITRO.0.PSM.A_homer_format_0.0005.txt GATA2.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2371.75	2285.75	2122.75	1607.75
02	4471.0	890.0	117.0	2910.0
03	0.0	0.0	8388.0	0.0
04	8388.0	0.0	0.0	0.0
05	0.0	0.0	0.0	8388.0
06	8023.0	268.0	0.0	97.0
07	7705.0	150.0	295.0	238.0
08	617.0	3683.0	3376.0	712.0
09	2409.25	1725.25	3509.25	744.25
10	2057.0	1910.0	1647.0	2774.0

PFM

	A	C	G	T
01	0.283	0.273	0.253	0.192
02	0.533	0.106	0.014	0.347
03	0.0	0.0	1.0	0.0
04	1.0	0.0	0.0	0.0
05	0.0	0.0	0.0	1.0
06	0.956	0.032	0.0	0.012
07	0.919	0.018	0.035	0.028
08	0.074	0.439	0.402	0.085
09	0.287	0.206	0.418	0.089
10	0.245	0.228	0.196	0.331

PWM

	A	C	G	T
01	0.123	0.086	0.012	-0.265
02	0.757	-0.856	-2.868	0.327
03	-6.835	-6.835	1.385	-6.835
04	1.385	-6.835	-6.835	-6.835
05	-6.835	-6.835	-6.835	1.385
06	1.341	-2.05	-6.835	-3.052
07	1.301	-2.624	-1.955	-2.168
08	-1.221	0.563	0.476	-1.078
09	0.139	-0.195	0.514	-1.034
10	-0.019	-0.093	-0.241	0.28

Standard thresholds

P-value	Threshold
0.001	4.639335
0.0005	5.772475
0.0001	7.909755