GATA1.H13RSNP.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA1.H13RSNP.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	vvWGATRRSv
GC content	44.47%
Information content (bits; total / per base)	8.058 / 0.806
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1042
Previous names	GATA1.H12RSNP.1.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	21 (139)	0.918	0.968	0.849	0.937	0.881	0.937	3.134	3.748	244.086	381.137
Mouse	37 (221)	0.872	0.939	0.778	0.886	0.841	0.901	2.808	3.219	177.102	361.086

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.938	0.904	0.892	0.859	0.827	0.803
Overall, 2 experiments	best	0.968	0.942	0.958	0.929	0.931	0.9
Methyl HT-SELEX, 1 experiments	median	0.968	0.942	0.958	0.929	0.931	0.9
Methyl HT-SELEX, 1 experiments	best	0.968	0.942	0.958	0.929	0.931	0.9
Non-Methyl HT-SELEX, 1 experiments	median	0.907	0.867	0.827	0.789	0.724	0.706
Non-Methyl HT-SELEX, 1 experiments	best	0.907	0.867	0.827	0.789	0.724	0.706

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.838	7.528	0.24	0.144

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	GATA1.H13RSNP.1.PSM.A.pcm
PWM	GATA1.H13RSNP.1.PSM.A.pwm
PFM	GATA1.H13RSNP.1.PSM.A.pfm
Threshold to P-value map	GATA1.H13RSNP.1.PSM.A.thr
Motif in other formats
JASPAR format	GATA1.H13RSNP.1.PSM.A_jaspar_format.txt
MEME format	GATA1.H13RSNP.1.PSM.A_meme_format.meme
Transfac format	GATA1.H13RSNP.1.PSM.A_transfac_format.txt
Homer format	GATA1.H13RSNP.1.PSM.A_homer_format_0.001.txt GATA1.H13RSNP.1.PSM.A_homer_format_0.0005.txt GATA1.H13RSNP.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	275.0	182.0	419.0	166.0
02	140.0	514.0	302.0	86.0
03	637.0	49.0	24.0	332.0
04	2.0	15.0	1023.0	2.0
05	951.0	26.0	46.0	19.0
06	64.0	62.0	45.0	871.0
07	829.0	29.0	125.0	59.0
08	735.0	34.0	205.0	68.0
09	104.0	196.0	677.0	65.0
10	315.0	204.0	457.0	66.0

PFM

	A	C	G	T
01	0.264	0.175	0.402	0.159
02	0.134	0.493	0.29	0.083
03	0.611	0.047	0.023	0.319
04	0.002	0.014	0.982	0.002
05	0.913	0.025	0.044	0.018
06	0.061	0.06	0.043	0.836
07	0.796	0.028	0.12	0.057
08	0.705	0.033	0.197	0.065
09	0.1	0.188	0.65	0.062
10	0.302	0.196	0.439	0.063

PWM

	A	C	G	T
01	0.054	-0.356	0.473	-0.447
02	-0.615	0.676	0.147	-1.095
03	0.89	-1.643	-2.321	0.241
04	-4.251	-2.752	1.363	-4.251
05	1.29	-2.246	-1.704	-2.537
06	-1.384	-1.414	-1.725	1.202
07	1.153	-2.144	-0.727	-1.463
08	1.033	-1.993	-0.238	-1.325
09	-0.908	-0.282	0.951	-1.368
10	0.189	-0.243	0.559	-1.354

Standard thresholds

P-value	Threshold
0.001	5.02578
0.0005	5.738165
0.0001	7.101445