GATA3.H12INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA3.H12INVITRO.1.SM.B
Gene (human)	GATA3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gata3
Gene synonyms (mouse)	Gata-3
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	13
Consensus	nvMGATAAGAKMd
GC content	36.7%
Information content (bits; total / per base)	15.419 / 1.186
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	1060

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)	0.65	0.829	0.552	0.766	0.707	0.881	2.0	3.116	80.523	228.292
Mouse	29 (173)	0.685	0.757	0.6	0.686	0.7	0.753	2.1	2.438	104.42	249.569

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.858	0.828	0.7	0.699	0.593	0.616
Overall, 6 experiments	best	0.997	0.996	0.989	0.984	0.98	0.971
Methyl HT-SELEX, 1 experiments	median	0.997	0.996	0.989	0.984	0.98	0.971
Methyl HT-SELEX, 1 experiments	best	0.997	0.996	0.989	0.984	0.98	0.971
Non-Methyl HT-SELEX, 5 experiments	median	0.857	0.825	0.69	0.695	0.584	0.612
Non-Methyl HT-SELEX, 5 experiments	best	0.991	0.987	0.985	0.977	0.973	0.962

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	4.558	5.11	0.153	0.098

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.913	0.249	0.885	0.497
batch 2	0.635	0.266	0.621	0.45

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.H12INVITRO.1.SM.B.pcm
PWM	GATA3.H12INVITRO.1.SM.B.pwm
PFM	GATA3.H12INVITRO.1.SM.B.pfm
Alignment	GATA3.H12INVITRO.1.SM.B.words.tsv
Threshold to P-value map	GATA3.H12INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	GATA3.H12INVITRO.1.SM.B_jaspar_format.txt
MEME format	GATA3.H12INVITRO.1.SM.B_meme_format.meme
Transfac format	GATA3.H12INVITRO.1.SM.B_transfac_format.txt
Homer format	GATA3.H12INVITRO.1.SM.B_homer_format_0.001.txt GATA3.H12INVITRO.1.SM.B_homer_format_0.0005.txt GATA3.H12INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	262.0	233.0	224.0	341.0
02	266.25	275.25	429.25	89.25
03	724.0	195.0	0.0	141.0
04	0.0	0.0	1060.0	0.0
05	1060.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1060.0
07	1060.0	0.0	0.0	0.0
08	1060.0	0.0	0.0	0.0
09	0.0	68.0	992.0	0.0
10	782.0	1.0	277.0	0.0
11	61.0	74.0	93.0	832.0
12	135.75	701.75	123.75	98.75
13	289.0	115.0	195.0	461.0

PFM

	A	C	G	T
01	0.247	0.22	0.211	0.322
02	0.251	0.26	0.405	0.084
03	0.683	0.184	0.0	0.133
04	0.0	0.0	1.0	0.0
05	1.0	0.0	0.0	0.0
06	0.0	0.0	0.0	1.0
07	1.0	0.0	0.0	0.0
08	1.0	0.0	0.0	0.0
09	0.0	0.064	0.936	0.0
10	0.738	0.001	0.261	0.0
11	0.058	0.07	0.088	0.785
12	0.128	0.662	0.117	0.093
13	0.273	0.108	0.184	0.435

PWM

	A	C	G	T
01	-0.011	-0.128	-0.167	0.251
02	0.005	0.038	0.48	-1.076
03	1.001	-0.304	-5.032	-0.625
04	-5.032	-5.032	1.381	-5.032
05	1.381	-5.032	-5.032	-5.032
06	-5.032	-5.032	-5.032	1.381
07	1.381	-5.032	-5.032	-5.032
08	1.381	-5.032	-5.032	-5.032
09	-5.032	-1.341	1.315	-5.032
10	1.078	-4.578	0.044	-5.032
11	-1.447	-1.259	-1.035	1.14
12	-0.663	0.97	-0.754	-0.976
13	0.086	-0.826	-0.304	0.551

Standard thresholds

P-value	Threshold
0.001	1.415925
0.0005	2.81206
0.0001	6.11903