GATA1.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GATA1.H12RSNP.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	nKbnndnnnvWGATAAvv
GC content	43.79%
Information content (bits; total / per base)	11.68 / 0.649
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)	0.937	0.977	0.874	0.955	0.926	0.961	3.782	4.419	297.796	408.886
Mouse	37 (221)	0.893	0.956	0.799	0.907	0.875	0.936	3.21	3.868	182.569	402.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.884	0.844	0.83	0.794	0.755	0.732
Overall, 2 experiments	best	0.958	0.928	0.938	0.904	0.863	0.836
Methyl HT-SELEX, 1 experiments	median	0.958	0.928	0.938	0.904	0.863	0.836
Methyl HT-SELEX, 1 experiments	best	0.958	0.928	0.938	0.904	0.863	0.836
Non-Methyl HT-SELEX, 1 experiments	median	0.811	0.759	0.723	0.685	0.647	0.629
Non-Methyl HT-SELEX, 1 experiments	best	0.811	0.759	0.723	0.685	0.647	0.629

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	4.184	13.07	0.289	0.191

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.H12RSNP.0.P.B.pcm
PWM	GATA1.H12RSNP.0.P.B.pwm
PFM	GATA1.H12RSNP.0.P.B.pfm
Alignment	GATA1.H12RSNP.0.P.B.words.tsv
Threshold to P-value map	GATA1.H12RSNP.0.P.B.thr
Motif in other formats
JASPAR format	GATA1.H12RSNP.0.P.B_jaspar_format.txt
MEME format	GATA1.H12RSNP.0.P.B_meme_format.meme
Transfac format	GATA1.H12RSNP.0.P.B_transfac_format.txt
Homer format	GATA1.H12RSNP.0.P.B_homer_format_0.001.txt GATA1.H12RSNP.0.P.B_homer_format_0.0005.txt GATA1.H12RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	142.0	142.0	223.0	493.0
02	92.0	95.0	584.0	229.0
03	139.0	241.0	407.0	213.0
04	233.0	199.0	279.0	289.0
05	304.0	193.0	295.0	208.0
06	253.0	156.0	402.0	189.0
07	242.0	210.0	327.0	221.0
08	210.0	227.0	291.0	272.0
09	298.0	182.0	315.0	205.0
10	159.0	442.0	291.0	108.0
11	653.25	8.25	7.25	331.25
12	0.25	1.25	998.25	0.25
13	993.25	0.25	2.25	4.25
14	0.25	6.25	5.25	988.25
15	963.25	0.25	13.25	23.25
16	890.25	6.25	85.25	18.25
17	211.25	127.25	581.25	80.25
18	388.25	174.25	365.25	72.25

PFM

	A	C	G	T
01	0.142	0.142	0.223	0.493
02	0.092	0.095	0.584	0.229
03	0.139	0.241	0.407	0.213
04	0.233	0.199	0.279	0.289
05	0.304	0.193	0.295	0.208
06	0.253	0.156	0.402	0.189
07	0.242	0.21	0.327	0.221
08	0.21	0.227	0.291	0.272
09	0.298	0.182	0.315	0.205
10	0.159	0.442	0.291	0.108
11	0.653	0.008	0.007	0.331
12	0.0	0.001	0.998	0.0
13	0.993	0.0	0.002	0.004
14	0.0	0.006	0.005	0.988
15	0.963	0.0	0.013	0.023
16	0.89	0.006	0.085	0.018
17	0.211	0.127	0.581	0.08
18	0.388	0.174	0.365	0.072

PWM

	A	C	G	T
01	-0.56	-0.56	-0.113	0.676
02	-0.988	-0.956	0.845	-0.087
03	-0.582	-0.036	0.485	-0.159
04	-0.07	-0.226	0.109	0.144
05	0.194	-0.257	0.164	-0.183
06	0.012	-0.467	0.472	-0.278
07	-0.032	-0.173	0.267	-0.122
08	-0.173	-0.096	0.151	0.084
09	0.175	-0.315	0.23	-0.197
10	-0.449	0.567	0.151	-0.83
11	0.956	-3.228	-3.334	0.28
12	-4.847	-4.437	1.379	-4.847
13	1.374	-4.847	-4.148	-3.74
14	-4.847	-3.452	-3.586	1.369
15	1.344	-4.847	-2.822	-2.31
16	1.265	-3.452	-1.063	-2.534
17	-0.167	-0.669	0.84	-1.122
18	0.438	-0.358	0.377	-1.225

Standard thresholds

P-value	Threshold
0.001	4.08826
0.0005	5.25941
0.0001	7.51601