GATA3.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA3.H12INVIVO.0.PS.A
Gene (human)	GATA3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gata3
Gene synonyms (mouse)	Gata-3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	vWGATARvvdnn
GC content	38.57%
Information content (bits; total / per base)	9.911 / 0.826
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1000

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	54 (340)	0.811	0.929	0.666	0.84	0.784	0.916	2.298	3.131	151.14	406.125
Mouse	29 (173)	0.834	0.884	0.716	0.788	0.798	0.859	2.491	2.89	216.131	496.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.866	0.827	0.723	0.713	0.598	0.623
Overall, 6 experiments	best	0.994	0.988	0.991	0.984	0.984	0.975
Methyl HT-SELEX, 1 experiments	median	0.994	0.988	0.991	0.984	0.984	0.975
Methyl HT-SELEX, 1 experiments	best	0.994	0.988	0.991	0.984	0.984	0.975
Non-Methyl HT-SELEX, 5 experiments	median	0.865	0.825	0.707	0.705	0.587	0.616
Non-Methyl HT-SELEX, 5 experiments	best	0.988	0.98	0.982	0.97	0.962	0.946

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.994	6.552	0.197	0.091

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.931	0.473	0.872	0.487
batch 2	0.687	0.326	0.692	0.535

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: 2.2.1.1.3
HGNC	HGNC:4172
MGI	MGI:95663
EntrezGene (human)	GeneID:2625 (SSTAR profile)
EntrezGene (mouse)	GeneID:14462 (SSTAR profile)
UniProt ID (human)	GATA3_HUMAN
UniProt ID (mouse)	GATA3_MOUSE
UniProt AC (human)	P23771 (TFClass)
UniProt AC (mouse)	P23772 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	54 human, 29 mouse
HT-SELEX	5
Methyl-HT-SELEX	1

PCM	GATA3.H12INVIVO.0.PS.A.pcm
PWM	GATA3.H12INVIVO.0.PS.A.pwm
PFM	GATA3.H12INVIVO.0.PS.A.pfm
Alignment	GATA3.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	GATA3.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	GATA3.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	GATA3.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	GATA3.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	GATA3.H12INVIVO.0.PS.A_homer_format_0.001.txt GATA3.H12INVIVO.0.PS.A_homer_format_0.0005.txt GATA3.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	191.0	395.0	326.0	88.0
02	697.0	21.0	9.0	273.0
03	1.0	0.0	999.0	0.0
04	997.0	2.0	1.0	0.0
05	2.0	12.0	1.0	985.0
06	879.0	13.0	10.0	98.0
07	697.0	37.0	214.0	52.0
08	179.0	305.0	445.0	71.0
09	462.0	209.0	279.0	50.0
10	431.0	115.0	192.0	262.0
11	161.0	326.0	173.0	340.0
12	212.0	379.0	166.0	243.0

PFM

	A	C	G	T
01	0.191	0.395	0.326	0.088
02	0.697	0.021	0.009	0.273
03	0.001	0.0	0.999	0.0
04	0.997	0.002	0.001	0.0
05	0.002	0.012	0.001	0.985
06	0.879	0.013	0.01	0.098
07	0.697	0.037	0.214	0.052
08	0.179	0.305	0.445	0.071
09	0.462	0.209	0.279	0.05
10	0.431	0.115	0.192	0.262
11	0.161	0.326	0.173	0.34
12	0.212	0.379	0.166	0.243

PWM

	A	C	G	T
01	-0.267	0.455	0.264	-1.032
02	1.021	-2.405	-3.156	0.087
03	-4.525	-4.982	1.38	-4.982
04	1.378	-4.213	-4.525	-4.982
05	-4.213	-2.909	-4.525	1.366
06	1.252	-2.839	-3.066	-0.926
07	1.021	-1.872	-0.154	-1.544
08	-0.331	0.198	0.574	-1.242
09	0.611	-0.178	0.109	-1.582
10	0.542	-0.769	-0.262	0.047
11	-0.436	0.264	-0.365	0.306
12	-0.164	0.414	-0.406	-0.028

Standard thresholds

P-value	Threshold
0.001	4.93536
0.0005	5.89211
0.0001	7.53077