GATA6.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA6.H12CORE.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	12
Consensus	nnnvWGATAASv
GC content	39.9%
Information content (bits; total / per base)	11.486 / 0.957
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1007

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)	0.933	0.973	0.86	0.933	0.917	0.964	3.326	4.063	186.939	450.854
Mouse	7 (47)	0.925	0.949	0.845	0.877	0.903	0.92	3.185	3.351	233.854	462.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.974	0.952	0.967	0.943	0.944	0.918
Overall, 2 experiments	best	0.978	0.959	0.975	0.955	0.96	0.938
Methyl HT-SELEX, 1 experiments	median	0.978	0.959	0.975	0.955	0.96	0.938
Methyl HT-SELEX, 1 experiments	best	0.978	0.959	0.975	0.955	0.96	0.938
Non-Methyl HT-SELEX, 1 experiments	median	0.969	0.944	0.958	0.931	0.928	0.897
Non-Methyl HT-SELEX, 1 experiments	best	0.969	0.944	0.958	0.931	0.928	0.897

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	7.66	3.398	0.49	0.273

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.696	0.365	0.725	0.508

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

PCM	GATA6.H12CORE.0.PSM.A.pcm
PWM	GATA6.H12CORE.0.PSM.A.pwm
PFM	GATA6.H12CORE.0.PSM.A.pfm
Alignment	GATA6.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	GATA6.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	GATA6.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	GATA6.H12CORE.0.PSM.A_meme_format.meme
Transfac format	GATA6.H12CORE.0.PSM.A_transfac_format.txt
Homer format	GATA6.H12CORE.0.PSM.A_homer_format_0.001.txt GATA6.H12CORE.0.PSM.A_homer_format_0.0005.txt GATA6.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	254.0	260.0	293.0	200.0
02	245.0	290.0	239.0	233.0
03	317.0	174.0	280.0	236.0
04	180.0	399.0	310.0	118.0
05	653.0	24.0	1.0	329.0
06	1.0	0.0	1003.0	3.0
07	999.0	3.0	4.0	1.0
08	2.0	3.0	6.0	996.0
09	953.0	5.0	6.0	43.0
10	951.0	5.0	41.0	10.0
11	68.0	146.0	779.0	14.0
12	426.0	184.0	367.0	30.0

PFM

	A	C	G	T
01	0.252	0.258	0.291	0.199
02	0.243	0.288	0.237	0.231
03	0.315	0.173	0.278	0.234
04	0.179	0.396	0.308	0.117
05	0.648	0.024	0.001	0.327
06	0.001	0.0	0.996	0.003
07	0.992	0.003	0.004	0.001
08	0.002	0.003	0.006	0.989
09	0.946	0.005	0.006	0.043
10	0.944	0.005	0.041	0.01
11	0.068	0.145	0.774	0.014
12	0.423	0.183	0.364	0.03

PWM

	A	C	G	T
01	0.009	0.032	0.151	-0.228
02	-0.027	0.141	-0.052	-0.077
03	0.229	-0.366	0.106	-0.064
04	-0.333	0.458	0.207	-0.75
05	0.949	-2.288	-4.531	0.266
06	-4.531	-4.988	1.377	-3.982
07	1.373	-3.982	-3.79	-4.531
08	-4.219	-3.982	-3.49	1.37
09	1.326	-3.629	-3.49	-1.735
10	1.324	-3.629	-1.78	-3.073
11	-1.291	-0.54	1.125	-2.78
12	0.523	-0.311	0.375	-2.078

Standard thresholds

P-value	Threshold
0.001	4.06347
0.0005	5.155645
0.0001	7.592655