GATA2.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA2.H12RSNP.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	12
Consensus	vWGATARvvhhh
GC content	33.76%
Information content (bits; total / per base)	10.07 / 0.839
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)	0.85	0.915	0.715	0.799	0.856	0.908	2.706	3.116	191.315	355.301
Mouse	23 (136)	0.807	0.921	0.662	0.805	0.784	0.915	2.366	3.072	160.856	325.018

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.928	0.879	0.914	0.862	0.89	0.837
Overall, 2 experiments	best	0.933	0.885	0.919	0.87	0.894	0.843
Methyl HT-SELEX, 1 experiments	median	0.933	0.885	0.919	0.87	0.894	0.843
Methyl HT-SELEX, 1 experiments	best	0.933	0.885	0.919	0.87	0.894	0.843
Non-Methyl HT-SELEX, 1 experiments	median	0.923	0.872	0.908	0.855	0.886	0.831
Non-Methyl HT-SELEX, 1 experiments	best	0.923	0.872	0.908	0.855	0.886	0.831

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	4.111	4.815	0.21	0.101

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.689	0.324	0.665	0.472

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.H12RSNP.0.PSM.A.pcm
PWM	GATA2.H12RSNP.0.PSM.A.pwm
PFM	GATA2.H12RSNP.0.PSM.A.pfm
Alignment	GATA2.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	GATA2.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	GATA2.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	GATA2.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	GATA2.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	GATA2.H12RSNP.0.PSM.A_homer_format_0.001.txt GATA2.H12RSNP.0.PSM.A_homer_format_0.0005.txt GATA2.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	248.0	376.0	265.0	121.0
02	721.0	19.0	17.0	253.0
03	1.0	1.0	1008.0	0.0
04	1006.0	1.0	1.0	2.0
05	6.0	4.0	1.0	999.0
06	906.0	11.0	7.0	86.0
07	773.0	40.0	148.0	49.0
08	241.0	261.0	372.0	136.0
09	507.0	171.0	261.0	71.0
10	448.0	122.0	114.0	326.0
11	167.0	274.0	129.0	440.0
12	209.0	356.0	133.0	312.0

PFM

	A	C	G	T
01	0.246	0.372	0.262	0.12
02	0.714	0.019	0.017	0.25
03	0.001	0.001	0.998	0.0
04	0.996	0.001	0.001	0.002
05	0.006	0.004	0.001	0.989
06	0.897	0.011	0.007	0.085
07	0.765	0.04	0.147	0.049
08	0.239	0.258	0.368	0.135
09	0.502	0.169	0.258	0.07
10	0.444	0.121	0.113	0.323
11	0.165	0.271	0.128	0.436
12	0.207	0.352	0.132	0.309

PWM

	A	C	G	T
01	-0.018	0.396	0.048	-0.728
02	1.045	-2.507	-2.608	0.002
03	-4.534	-4.534	1.379	-4.99
04	1.377	-4.534	-4.534	-4.222
05	-3.493	-3.793	-4.534	1.37
06	1.273	-2.994	-3.372	-1.064
07	1.114	-1.807	-0.529	-1.612
08	-0.046	0.033	0.385	-0.613
09	0.694	-0.387	0.033	-1.251
10	0.57	-0.72	-0.787	0.254
11	-0.41	0.081	-0.665	0.552
12	-0.188	0.342	-0.635	0.21

Standard thresholds

P-value	Threshold
0.001	4.86701
0.0005	5.828475
0.0001	7.540765