GATA1.H12INVIVO.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA1.H12INVIVO.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	nbWGATAASv
GC content	40.65%
Information content (bits; total / per base)	10.382 / 1.038
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1022

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)	0.937	0.975	0.872	0.945	0.907	0.95	3.278	3.884	287.585	433.276
Mouse	37 (221)	0.903	0.957	0.805	0.909	0.868	0.924	2.934	3.373	203.745	404.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.948	0.916	0.919	0.884	0.863	0.835
Overall, 2 experiments	best	0.97	0.944	0.966	0.939	0.949	0.92
Methyl HT-SELEX, 1 experiments	median	0.97	0.944	0.966	0.939	0.949	0.92
Methyl HT-SELEX, 1 experiments	best	0.97	0.944	0.966	0.939	0.949	0.92
Non-Methyl HT-SELEX, 1 experiments	median	0.926	0.887	0.872	0.83	0.777	0.75
Non-Methyl HT-SELEX, 1 experiments	best	0.926	0.887	0.872	0.83	0.777	0.75

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.366	5.359	0.25	0.127

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.H12INVIVO.1.PSM.A.pcm
PWM	GATA1.H12INVIVO.1.PSM.A.pwm
PFM	GATA1.H12INVIVO.1.PSM.A.pfm
Alignment	GATA1.H12INVIVO.1.PSM.A.words.tsv
Threshold to P-value map	GATA1.H12INVIVO.1.PSM.A.thr
Motif in other formats
JASPAR format	GATA1.H12INVIVO.1.PSM.A_jaspar_format.txt
MEME format	GATA1.H12INVIVO.1.PSM.A_meme_format.meme
Transfac format	GATA1.H12INVIVO.1.PSM.A_transfac_format.txt
Homer format	GATA1.H12INVIVO.1.PSM.A_homer_format_0.001.txt GATA1.H12INVIVO.1.PSM.A_homer_format_0.0005.txt GATA1.H12INVIVO.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	279.0	188.0	367.0	188.0
02	101.0	482.0	337.0	102.0
03	646.0	50.0	14.0	312.0
04	3.0	0.0	1018.0	1.0
05	1018.0	1.0	2.0	1.0
06	6.0	4.0	2.0	1010.0
07	946.0	14.0	19.0	43.0
08	846.0	18.0	114.0	44.0
09	97.0	197.0	675.0	53.0
10	291.0	202.0	450.0	79.0

PFM

	A	C	G	T
01	0.273	0.184	0.359	0.184
02	0.099	0.472	0.33	0.1
03	0.632	0.049	0.014	0.305
04	0.003	0.0	0.996	0.001
05	0.996	0.001	0.002	0.001
06	0.006	0.004	0.002	0.988
07	0.926	0.014	0.019	0.042
08	0.828	0.018	0.112	0.043
09	0.095	0.193	0.66	0.052
10	0.285	0.198	0.44	0.077

PWM

	A	C	G	T
01	0.087	-0.304	0.36	-0.304
02	-0.918	0.632	0.275	-0.908
03	0.923	-1.604	-2.794	0.199
04	-3.996	-5.0	1.377	-4.545
05	1.377	-4.545	-4.233	-4.545
06	-3.505	-3.804	-4.233	1.369
07	1.304	-2.794	-2.518	-1.749
08	1.193	-2.568	-0.799	-1.727
09	-0.958	-0.258	0.967	-1.548
10	0.129	-0.233	0.563	-1.159

Standard thresholds

P-value	Threshold
0.001	4.677275
0.0005	5.692655
0.0001	7.50191