GATA1.H12CORE.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA1.H12CORE.1.PSM.A
Gene (human)	GATA1 (GeneCards)
Gene synonyms (human)	ERYF1, GF1
Gene (mouse)	Gata1
Gene synonyms (mouse)	Gf-1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	10
Consensus	nvWGATAASv
GC content	38.65%
Information content (bits; total / per base)	10.651 / 1.065
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1006

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	21 (139)	0.935	0.974	0.868	0.946	0.911	0.953	3.293	3.92	283.745	422.119
Mouse	37 (221)	0.897	0.957	0.798	0.909	0.87	0.929	2.964	3.41	210.31	409.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.949	0.917	0.919	0.885	0.861	0.835
Overall, 2 experiments	best	0.971	0.946	0.967	0.941	0.95	0.922
Methyl HT-SELEX, 1 experiments	median	0.971	0.946	0.967	0.941	0.95	0.922
Methyl HT-SELEX, 1 experiments	best	0.971	0.946	0.967	0.941	0.95	0.922
Non-Methyl HT-SELEX, 1 experiments	median	0.927	0.887	0.871	0.829	0.773	0.748
Non-Methyl HT-SELEX, 1 experiments	best	0.927	0.887	0.871	0.829	0.773	0.748

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.753	6.865	0.267	0.131

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: 2.2.1.1.1
HGNC	HGNC:4170
MGI	MGI:95661
EntrezGene (human)	GeneID:2623 (SSTAR profile)
EntrezGene (mouse)	GeneID:14460 (SSTAR profile)
UniProt ID (human)	GATA1_HUMAN
UniProt ID (mouse)	GATA1_MOUSE
UniProt AC (human)	P15976 (TFClass)
UniProt AC (mouse)	P17679 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	21 human, 37 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	GATA1.H12CORE.1.PSM.A.pcm
PWM	GATA1.H12CORE.1.PSM.A.pwm
PFM	GATA1.H12CORE.1.PSM.A.pfm
Alignment	GATA1.H12CORE.1.PSM.A.words.tsv
Threshold to P-value map	GATA1.H12CORE.1.PSM.A.thr
Motif in other formats
JASPAR format	GATA1.H12CORE.1.PSM.A_jaspar_format.txt
MEME format	GATA1.H12CORE.1.PSM.A_meme_format.meme
Transfac format	GATA1.H12CORE.1.PSM.A_transfac_format.txt
Homer format	GATA1.H12CORE.1.PSM.A_homer_format_0.001.txt GATA1.H12CORE.1.PSM.A_homer_format_0.0005.txt GATA1.H12CORE.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	303.0	188.0	327.0	188.0
02	138.0	444.0	305.0	119.0
03	629.0	38.0	9.0	330.0
04	0.0	1.0	1003.0	2.0
05	997.0	4.0	1.0	4.0
06	5.0	7.0	6.0	988.0
07	956.0	5.0	5.0	40.0
08	891.0	8.0	89.0	18.0
09	127.0	158.0	671.0	50.0
10	333.0	233.0	386.0	54.0

PFM

	A	C	G	T
01	0.301	0.187	0.325	0.187
02	0.137	0.441	0.303	0.118
03	0.625	0.038	0.009	0.328
04	0.0	0.001	0.997	0.002
05	0.991	0.004	0.001	0.004
06	0.005	0.007	0.006	0.982
07	0.95	0.005	0.005	0.04
08	0.886	0.008	0.088	0.018
09	0.126	0.157	0.667	0.05
10	0.331	0.232	0.384	0.054

PWM

	A	C	G	T
01	0.185	-0.289	0.261	-0.289
02	-0.595	0.565	0.192	-0.741
03	0.913	-1.852	-3.161	0.27
04	-4.987	-4.531	1.378	-4.218
05	1.372	-3.789	-4.531	-3.789
06	-3.628	-3.368	-3.489	1.363
07	1.33	-3.628	-3.628	-1.803
08	1.26	-3.259	-1.026	-2.552
09	-0.677	-0.461	0.977	-1.588
10	0.279	-0.076	0.426	-1.514

Standard thresholds

P-value	Threshold
0.001	4.430875
0.0005	5.57667
0.0001	7.62796