GATA4.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA4.H12INVIVO.0.PSM.A
Gene (human)	GATA4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gata4
Gene synonyms (mouse)	Gata-4
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	vvAGATAASv
GC content	37.82%
Information content (bits; total / per base)	10.554 / 1.055
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1000

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	25 (162)	0.903	0.955	0.812	0.907	0.891	0.942	3.049	3.667	164.276	407.854
Mouse	40 (192)	0.887	0.947	0.781	0.896	0.855	0.929	2.761	3.52	162.52	347.252

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.983	0.968	0.975	0.958	0.932	0.917
Overall, 4 experiments	best	0.986	0.972	0.986	0.973	0.976	0.961
Methyl HT-SELEX, 1 experiments	median	0.982	0.968	0.98	0.964	0.971	0.953
Methyl HT-SELEX, 1 experiments	best	0.982	0.968	0.98	0.964	0.971	0.953
Non-Methyl HT-SELEX, 3 experiments	median	0.983	0.968	0.97	0.953	0.893	0.881
Non-Methyl HT-SELEX, 3 experiments	best	0.986	0.972	0.986	0.973	0.976	0.961

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: 2.2.1.1.4
HGNC	HGNC:4173
MGI	MGI:95664
EntrezGene (human)	GeneID:2626 (SSTAR profile)
EntrezGene (mouse)	GeneID:14463 (SSTAR profile)
UniProt ID (human)	GATA4_HUMAN
UniProt ID (mouse)	GATA4_MOUSE
UniProt AC (human)	P43694 (TFClass)
UniProt AC (mouse)	Q08369 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	25 human, 40 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	GATA4.H12INVIVO.0.PSM.A.pcm
PWM	GATA4.H12INVIVO.0.PSM.A.pwm
PFM	GATA4.H12INVIVO.0.PSM.A.pfm
Alignment	GATA4.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	GATA4.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	GATA4.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	GATA4.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	GATA4.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	GATA4.H12INVIVO.0.PSM.A_homer_format_0.001.txt GATA4.H12INVIVO.0.PSM.A_homer_format_0.0005.txt GATA4.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	338.0	170.0	330.0	162.0
02	183.0	378.0	292.0	147.0
03	691.0	10.0	6.0	293.0
04	0.0	0.0	1000.0	0.0
05	998.0	2.0	0.0	0.0
06	8.0	2.0	4.0	986.0
07	906.0	5.0	5.0	84.0
08	797.0	5.0	182.0	16.0
09	70.0	273.0	617.0	40.0
10	434.0	166.0	335.0	65.0

PFM

	A	C	G	T
01	0.338	0.17	0.33	0.162
02	0.183	0.378	0.292	0.147
03	0.691	0.01	0.006	0.293
04	0.0	0.0	1.0	0.0
05	0.998	0.002	0.0	0.0
06	0.008	0.002	0.004	0.986
07	0.906	0.005	0.005	0.084
08	0.797	0.005	0.182	0.016
09	0.07	0.273	0.617	0.04
10	0.434	0.166	0.335	0.065

PWM

	A	C	G	T
01	0.3	-0.382	0.276	-0.43
02	-0.309	0.411	0.154	-0.526
03	1.012	-3.066	-3.484	0.158
04	-4.982	-4.982	1.381	-4.982
05	1.379	-4.213	-4.982	-4.982
06	-3.253	-4.213	-3.783	1.367
07	1.283	-3.622	-3.622	-1.077
08	1.155	-3.622	-0.315	-2.653
09	-1.255	0.087	0.899	-1.797
10	0.549	-0.406	0.291	-1.328

Standard thresholds

P-value	Threshold
0.001	4.567935
0.0005	5.72827
0.0001	7.72808