GATA1.H12INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA1.H12INVIVO.0.P.B
Gene (human)	GATA1 (GeneCards)
Gene synonyms (human)	ERYF1, GF1
Gene (mouse)	Gata1
Gene synonyms (mouse)	Gf-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	18
Consensus	bbbnvvvvnvWGATAASv
GC content	51.28%
Information content (bits; total / per base)	11.989 / 0.666
Data sources	ChIP-Seq
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	21 (139)	0.955	0.985	0.908	0.967	0.927	0.961	3.792	4.427	298.796	474.854
Mouse	37 (221)	0.92	0.962	0.849	0.916	0.892	0.937	3.448	3.986	209.26	443.602

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.893	0.849	0.839	0.8	0.763	0.739
Overall, 2 experiments	best	0.956	0.926	0.935	0.9	0.868	0.838
Methyl HT-SELEX, 1 experiments	median	0.956	0.926	0.935	0.9	0.868	0.838
Methyl HT-SELEX, 1 experiments	best	0.956	0.926	0.935	0.9	0.868	0.838
Non-Methyl HT-SELEX, 1 experiments	median	0.83	0.772	0.743	0.701	0.659	0.64
Non-Methyl HT-SELEX, 1 experiments	best	0.83	0.772	0.743	0.701	0.659	0.64

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.087	8.873	0.282	0.168

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.0.P.B.pcm
PWM	GATA1.H12INVIVO.0.P.B.pwm
PFM	GATA1.H12INVIVO.0.P.B.pfm
Alignment	GATA1.H12INVIVO.0.P.B.words.tsv
Threshold to P-value map	GATA1.H12INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	GATA1.H12INVIVO.0.P.B_jaspar_format.txt
MEME format	GATA1.H12INVIVO.0.P.B_meme_format.meme
Transfac format	GATA1.H12INVIVO.0.P.B_transfac_format.txt
Homer format	GATA1.H12INVIVO.0.P.B_homer_format_0.001.txt GATA1.H12INVIVO.0.P.B_homer_format_0.0005.txt GATA1.H12INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	135.0	231.0	224.0	410.0
02	90.0	164.0	514.0	232.0
03	125.0	279.0	440.0	156.0
04	169.0	282.0	313.0	236.0
05	188.0	309.0	354.0	149.0
06	188.0	250.0	429.0	133.0
07	182.0	263.0	418.0	137.0
08	206.0	303.0	359.0	132.0
09	286.0	178.0	362.0	174.0
10	95.0	506.0	320.0	79.0
11	640.0	57.0	3.0	300.0
12	0.0	0.0	1000.0	0.0
13	1000.0	0.0	0.0	0.0
14	2.0	2.0	5.0	991.0
15	941.0	7.0	4.0	48.0
16	849.0	14.0	118.0	19.0
17	99.0	175.0	685.0	41.0
18	281.0	205.0	458.0	56.0

PFM

	A	C	G	T
01	0.135	0.231	0.224	0.41
02	0.09	0.164	0.514	0.232
03	0.125	0.279	0.44	0.156
04	0.169	0.282	0.313	0.236
05	0.188	0.309	0.354	0.149
06	0.188	0.25	0.429	0.133
07	0.182	0.263	0.418	0.137
08	0.206	0.303	0.359	0.132
09	0.286	0.178	0.362	0.174
10	0.095	0.506	0.32	0.079
11	0.64	0.057	0.003	0.3
12	0.0	0.0	1.0	0.0
13	1.0	0.0	0.0	0.0
14	0.002	0.002	0.005	0.991
15	0.941	0.007	0.004	0.048
16	0.849	0.014	0.118	0.019
17	0.099	0.175	0.685	0.041
18	0.281	0.205	0.458	0.056

PWM

	A	C	G	T
01	-0.61	-0.078	-0.109	0.492
02	-1.01	-0.418	0.717	-0.074
03	-0.686	0.109	0.562	-0.467
04	-0.388	0.12	0.223	-0.057
05	-0.283	0.211	0.346	-0.513
06	-0.283	0.0	0.537	-0.625
07	-0.315	0.05	0.511	-0.596
08	-0.192	0.191	0.36	-0.633
09	0.134	-0.337	0.368	-0.359
10	-0.956	0.702	0.245	-1.137
11	0.936	-1.455	-3.975	0.181
12	-4.982	-4.982	1.381	-4.982
13	1.381	-4.982	-4.982	-4.982
14	-4.213	-4.213	-3.622	1.372
15	1.32	-3.362	-3.783	-1.622
16	1.218	-2.773	-0.743	-2.497
17	-0.916	-0.354	1.004	-1.774
18	0.116	-0.197	0.602	-1.473

Standard thresholds

P-value	Threshold
0.001	4.08866
0.0005	5.23246
0.0001	7.39551