EGR1.H13CORE.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	EGR1.H13CORE.0.PS.A
Gene (human)	EGR1 (GeneCards)
Gene synonyms (human)	KROX24, ZNF225
Gene (mouse)	Egr1
Gene synonyms (mouse)	Egr-1, Krox-24
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	16
Consensus	nnYGCGTGGGCGKdnn
GC content	67.26%
Information content (bits; total / per base)	17.422 / 1.089
Data sources	ChIP-Seq + HT-SELEX
Aligned words	9274
Previous names	EGR1.H12CORE.0.PS.A

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	18 (118)	0.91	0.958	0.847	0.908	0.922	0.972	4.112	4.617	379.468	695.31
Mouse	4 (25)	0.901	0.96	0.785	0.904	0.9	0.966	3.489	4.426	199.046	337.357

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 5 experiments	median	0.899	0.898	0.702	0.725	0.595	0.63
Non-Methyl HT-SELEX, 5 experiments	best	0.998	0.998	0.979	0.969	0.953	0.937

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.372	28.102	0.319	0.129

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.972	0.814	0.947	0.506
batch 2	0.898	0.597	0.873	0.616

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Three-zinc finger Kruppel-related {2.3.1} (TFClass)
TF subfamily	EGR {2.3.1.3} (TFClass)
TFClass ID	TFClass: 2.3.1.3.1
HGNC	HGNC:3238
MGI	MGI:95295
EntrezGene (human)	GeneID:1958 (SSTAR profile)
EntrezGene (mouse)	GeneID:13653 (SSTAR profile)
UniProt ID (human)	EGR1_HUMAN
UniProt ID (mouse)	EGR1_MOUSE
UniProt AC (human)	P18146 (TFClass)
UniProt AC (mouse)	P08046 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	18 human, 4 mouse
HT-SELEX	5
Methyl-HT-SELEX	0
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	EGR1.H13CORE.0.PS.A.pcm
PWM	EGR1.H13CORE.0.PS.A.pwm
PFM	EGR1.H13CORE.0.PS.A.pfm
Threshold to P-value map	EGR1.H13CORE.0.PS.A.thr
Motif in other formats
JASPAR format	EGR1.H13CORE.0.PS.A_jaspar_format.txt
MEME format	EGR1.H13CORE.0.PS.A_meme_format.meme
Transfac format	EGR1.H13CORE.0.PS.A_transfac_format.txt
Homer format	EGR1.H13CORE.0.PS.A_homer_format_0.001.txt EGR1.H13CORE.0.PS.A_homer_format_0.0005.txt EGR1.H13CORE.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2676.5	2018.5	1963.5	2615.5
02	2389.75	1556.75	2672.75	2654.75
03	629.0	1566.0	564.0	6515.0
04	307.0	38.0	8874.0	55.0
05	127.0	8955.0	65.0	127.0
06	7.0	0.0	9263.0	4.0
07	0.0	1.0	1482.0	7791.0
08	66.0	0.0	9208.0	0.0
09	1.0	6.0	9262.0	5.0
10	12.0	0.0	9248.0	14.0
11	262.0	7850.0	82.0	1080.0
12	110.0	34.0	9049.0	81.0
13	293.0	134.0	3615.0	5232.0
14	3295.0	827.0	3024.0	2128.0
15	2827.25	1418.25	2734.25	2294.25
16	2740.25	1652.25	2636.25	2245.25

PFM

	A	C	G	T
01	0.289	0.218	0.212	0.282
02	0.258	0.168	0.288	0.286
03	0.068	0.169	0.061	0.703
04	0.033	0.004	0.957	0.006
05	0.014	0.966	0.007	0.014
06	0.001	0.0	0.999	0.0
07	0.0	0.0	0.16	0.84
08	0.007	0.0	0.993	0.0
09	0.0	0.001	0.999	0.001
10	0.001	0.0	0.997	0.002
11	0.028	0.846	0.009	0.116
12	0.012	0.004	0.976	0.009
13	0.032	0.014	0.39	0.564
14	0.355	0.089	0.326	0.229
15	0.305	0.153	0.295	0.247
16	0.295	0.178	0.284	0.242

PWM

	A	C	G	T
01	0.143	-0.138	-0.166	0.12
02	0.03	-0.398	0.142	0.135
03	-1.302	-0.392	-1.411	1.033
04	-2.015	-4.054	1.341	-3.702
05	-2.888	1.351	-3.541	-2.888
06	-5.521	-6.924	1.384	-5.912
07	-6.924	-6.561	-0.447	1.211
08	-3.526	-6.924	1.378	-6.924
09	-6.561	-5.635	1.384	-5.764
10	-5.091	-6.924	1.383	-4.959
11	-2.173	1.219	-3.315	-0.763
12	-3.029	-4.158	1.361	-3.327
13	-2.062	-2.835	0.444	0.813
14	0.351	-1.029	0.265	-0.086
15	0.198	-0.491	0.165	-0.011
16	0.167	-0.338	0.128	-0.032

Standard thresholds

P-value	Threshold
0.001	-0.42934
0.0005	1.29691
0.0001	4.88236