GATA1.H12INVITRO.1.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA1.H12INVITRO.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	9
Consensus	hGATAASvn
GC content	34.8%
Information content (bits; total / per base)	10.257 / 1.14
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	7186

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)	0.897	0.952	0.81	0.897	0.877	0.931	2.811	3.355	254.409	373.018
Mouse	37 (221)	0.849	0.93	0.736	0.868	0.827	0.906	2.516	3.066	177.013	358.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.961	0.936	0.926	0.9	0.864	0.843
Overall, 2 experiments	best	0.979	0.967	0.97	0.952	0.95	0.927
Methyl HT-SELEX, 1 experiments	median	0.979	0.967	0.97	0.952	0.95	0.927
Methyl HT-SELEX, 1 experiments	best	0.979	0.967	0.97	0.952	0.95	0.927
Non-Methyl HT-SELEX, 1 experiments	median	0.942	0.905	0.882	0.847	0.779	0.758
Non-Methyl HT-SELEX, 1 experiments	best	0.942	0.905	0.882	0.847	0.779	0.758

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.581	1.911	0.217	0.076

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.H12INVITRO.1.PSM.A.pcm
PWM	GATA1.H12INVITRO.1.PSM.A.pwm
PFM	GATA1.H12INVITRO.1.PSM.A.pfm
Alignment	GATA1.H12INVITRO.1.PSM.A.words.tsv
Threshold to P-value map	GATA1.H12INVITRO.1.PSM.A.thr
Motif in other formats
JASPAR format	GATA1.H12INVITRO.1.PSM.A_jaspar_format.txt
MEME format	GATA1.H12INVITRO.1.PSM.A_meme_format.meme
Transfac format	GATA1.H12INVITRO.1.PSM.A_transfac_format.txt
Homer format	GATA1.H12INVITRO.1.PSM.A_homer_format_0.001.txt GATA1.H12INVITRO.1.PSM.A_homer_format_0.0005.txt GATA1.H12INVITRO.1.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2624.0	2269.0	518.0	1775.0
02	926.0	3.0	6256.0	1.0
03	7186.0	0.0	0.0	0.0
04	0.0	0.0	0.0	7186.0
05	7172.0	0.0	0.0	14.0
06	6982.0	45.0	96.0	63.0
07	229.0	3503.0	3114.0	340.0
08	2997.5	1025.5	2638.5	524.5
09	1811.75	1472.75	1565.75	2335.75

PFM

	A	C	G	T
01	0.365	0.316	0.072	0.247
02	0.129	0.0	0.871	0.0
03	1.0	0.0	0.0	0.0
04	0.0	0.0	0.0	1.0
05	0.998	0.0	0.0	0.002
06	0.972	0.006	0.013	0.009
07	0.032	0.487	0.433	0.047
08	0.417	0.143	0.367	0.073
09	0.252	0.205	0.218	0.325

PWM

	A	C	G	T
01	0.378	0.233	-1.241	-0.012
02	-0.662	-5.842	1.247	-6.325
03	1.385	-6.697	-6.697	-6.697
04	-6.697	-6.697	-6.697	1.385
05	1.383	-6.697	-6.697	-4.709
06	1.357	-3.64	-2.908	-3.317
07	-2.051	0.667	0.55	-1.659
08	0.511	-0.56	0.384	-1.228
09	0.008	-0.198	-0.137	0.262

Standard thresholds

P-value	Threshold
0.001	4.673185
0.0005	6.114925
0.0001	7.93936