GATA2.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA2.H12INVIVO.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	nvWGATARvv
GC content	38.3%
Information content (bits; total / per base)	9.855 / 0.985
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	999

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)	0.862	0.949	0.734	0.89	0.841	0.93	2.629	3.504	201.502	345.143
Mouse	23 (136)	0.826	0.956	0.702	0.899	0.792	0.94	2.453	3.603	176.784	350.409

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.943	0.901	0.925	0.881	0.899	0.852
Overall, 2 experiments	best	0.944	0.902	0.928	0.885	0.9	0.855
Methyl HT-SELEX, 1 experiments	median	0.944	0.902	0.928	0.885	0.9	0.855
Methyl HT-SELEX, 1 experiments	best	0.944	0.902	0.928	0.885	0.9	0.855
Non-Methyl HT-SELEX, 1 experiments	median	0.942	0.9	0.922	0.877	0.897	0.849
Non-Methyl HT-SELEX, 1 experiments	best	0.942	0.9	0.922	0.877	0.897	0.849

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.218	3.466	0.237	0.11

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.672	0.319	0.635	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.H12INVIVO.0.PSM.A.pcm
PWM	GATA2.H12INVIVO.0.PSM.A.pwm
PFM	GATA2.H12INVIVO.0.PSM.A.pfm
Alignment	GATA2.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	GATA2.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	GATA2.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	GATA2.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	GATA2.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	GATA2.H12INVIVO.0.PSM.A_homer_format_0.001.txt GATA2.H12INVIVO.0.PSM.A_homer_format_0.0005.txt GATA2.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	285.0	173.0	345.0	196.0
02	189.0	402.0	300.0	108.0
03	662.0	25.0	11.0	301.0
04	0.0	0.0	997.0	2.0
05	997.0	2.0	0.0	0.0
06	0.0	6.0	3.0	990.0
07	897.0	17.0	10.0	75.0
08	743.0	35.0	176.0	45.0
09	142.0	275.0	533.0	49.0
10	419.0	219.0	297.0	64.0

PFM

	A	C	G	T
01	0.285	0.173	0.345	0.196
02	0.189	0.402	0.3	0.108
03	0.663	0.025	0.011	0.301
04	0.0	0.0	0.998	0.002
05	0.998	0.002	0.0	0.0
06	0.0	0.006	0.003	0.991
07	0.898	0.017	0.01	0.075
08	0.744	0.035	0.176	0.045
09	0.142	0.275	0.534	0.049
10	0.419	0.219	0.297	0.064

PWM

	A	C	G	T
01	0.131	-0.364	0.321	-0.24
02	-0.277	0.473	0.182	-0.829
03	0.971	-2.242	-2.984	0.185
04	-4.981	-4.981	1.379	-4.212
05	1.379	-4.212	-4.981	-4.981
06	-4.981	-3.483	-3.974	1.372
07	1.274	-2.597	-3.065	-1.187
08	1.086	-1.924	-0.347	-1.683
09	-0.559	0.096	0.754	-1.601
10	0.515	-0.13	0.172	-1.342

Standard thresholds

P-value	Threshold
0.001	4.93657
0.0005	5.891365
0.0001	7.56706