GATA6.H13RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA6.H13RSNP.0.PSM.A
Gene (human)	GATA6 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gata6
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	9
Consensus	nvWGATARv
GC content	37.93%
Information content (bits; total / per base)	7.865 / 0.874
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1006
Previous names	GATA6.H12RSNP.0.PSM.A

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	29 (190)	0.938	0.975	0.878	0.946	0.907	0.952	3.039	3.623	183.176	410.886
Mouse	7 (47)	0.926	0.966	0.853	0.923	0.889	0.914	2.927	3.116	221.114	420.222

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.969	0.945	0.957	0.93	0.928	0.898
Overall, 2 experiments	best	0.974	0.952	0.968	0.944	0.952	0.926
Methyl HT-SELEX, 1 experiments	median	0.974	0.952	0.968	0.944	0.952	0.926
Methyl HT-SELEX, 1 experiments	best	0.974	0.952	0.968	0.944	0.952	0.926
Non-Methyl HT-SELEX, 1 experiments	median	0.964	0.939	0.946	0.916	0.903	0.87
Non-Methyl HT-SELEX, 1 experiments	best	0.964	0.939	0.946	0.916	0.903	0.87

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	7.536	3.364	0.476	0.29

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.713	0.355	0.767	0.551

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: 2.2.1.1.6
HGNC	HGNC:4174
MGI	MGI:107516
EntrezGene (human)	GeneID:2627 (SSTAR profile)
EntrezGene (mouse)	GeneID:14465 (SSTAR profile)
UniProt ID (human)	GATA6_HUMAN
UniProt ID (mouse)	GATA6_MOUSE
UniProt AC (human)	Q92908 (TFClass)
UniProt AC (mouse)	Q61169 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	29 human, 7 mouse
HT-SELEX	1
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	GATA6.H13RSNP.0.PSM.A.pcm
PWM	GATA6.H13RSNP.0.PSM.A.pwm
PFM	GATA6.H13RSNP.0.PSM.A.pfm
Threshold to P-value map	GATA6.H13RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	GATA6.H13RSNP.0.PSM.A_jaspar_format.txt
MEME format	GATA6.H13RSNP.0.PSM.A_meme_format.meme
Transfac format	GATA6.H13RSNP.0.PSM.A_transfac_format.txt
Homer format	GATA6.H13RSNP.0.PSM.A_homer_format_0.001.txt GATA6.H13RSNP.0.PSM.A_homer_format_0.0005.txt GATA6.H13RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	314.0	185.0	316.0	191.0
02	166.0	376.0	319.0	145.0
03	624.0	19.0	30.0	333.0
04	7.0	5.0	993.0	1.0
05	969.0	15.0	11.0	11.0
06	26.0	86.0	17.0	877.0
07	843.0	22.0	26.0	115.0
08	656.0	49.0	239.0	62.0
09	189.0	257.0	469.0	91.0

PFM

	A	C	G	T
01	0.312	0.184	0.314	0.19
02	0.165	0.374	0.317	0.144
03	0.62	0.019	0.03	0.331
04	0.007	0.005	0.987	0.001
05	0.963	0.015	0.011	0.011
06	0.026	0.085	0.017	0.872
07	0.838	0.022	0.026	0.114
08	0.652	0.049	0.238	0.062
09	0.188	0.255	0.466	0.09

PWM

	A	C	G	T
01	0.221	-0.305	0.227	-0.273
02	-0.412	0.4	0.236	-0.546
03	0.905	-2.503	-2.077	0.279
04	-3.368	-3.628	1.368	-4.531
05	1.344	-2.717	-2.99	-2.99
06	-2.212	-1.06	-2.604	1.244
07	1.205	-2.368	-2.212	-0.774
08	0.955	-1.608	-0.051	-1.38
09	-0.283	0.021	0.62	-1.005

Standard thresholds

P-value	Threshold
0.001	5.16795
0.0005	5.94638
0.0001	7.157765