ELF1.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELF1.H12RSNP.0.PSM.A
Gene (human)	ELF1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Elf1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	vvdvSCGGAAGYv
GC content	60.34%
Information content (bits; total / per base)	12.588 / 0.968
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	998

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	28 (179)	0.956	0.984	0.906	0.965	0.945	0.973	4.399	5.007	367.854	673.523
Mouse	5 (33)	0.96	0.98	0.923	0.956	0.942	0.967	4.269	4.676	371.201	462.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.999	0.998	0.997	0.996	0.961	0.96
Overall, 5 experiments	best	1.0	0.999	0.999	0.999	0.998	0.997
Methyl HT-SELEX, 2 experiments	median	0.994	0.99	0.991	0.986	0.956	0.951
Methyl HT-SELEX, 2 experiments	best	0.999	0.998	0.997	0.996	0.973	0.96
Non-Methyl HT-SELEX, 3 experiments	median	0.999	0.998	0.997	0.996	0.961	0.961
Non-Methyl HT-SELEX, 3 experiments	best	1.0	0.999	0.999	0.999	0.998	0.997

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	10.098	43.965	0.305	0.208

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.998	0.902	0.969	0.56
batch 2	0.825	0.647	0.839	0.606

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Tryptophan cluster factors {3.5} (TFClass)
TF family	Ets-related {3.5.2} (TFClass)
TF subfamily	ELF1-like {3.5.2.3} (TFClass)
TFClass ID	TFClass: 3.5.2.3.1
HGNC	HGNC:3316
MGI	MGI:107180
EntrezGene (human)	GeneID:1997 (SSTAR profile)
EntrezGene (mouse)	GeneID:13709 (SSTAR profile)
UniProt ID (human)	ELF1_HUMAN
UniProt ID (mouse)	ELF1_MOUSE
UniProt AC (human)	P32519 (TFClass)
UniProt AC (mouse)	Q60775 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	28 human, 5 mouse
HT-SELEX	3
Methyl-HT-SELEX	2

PCM	ELF1.H12RSNP.0.PSM.A.pcm
PWM	ELF1.H12RSNP.0.PSM.A.pwm
PFM	ELF1.H12RSNP.0.PSM.A.pfm
Alignment	ELF1.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	ELF1.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	ELF1.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	ELF1.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	ELF1.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	ELF1.H12RSNP.0.PSM.A_homer_format_0.001.txt ELF1.H12RSNP.0.PSM.A_homer_format_0.0005.txt ELF1.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	211.0	290.0	398.0	99.0
02	411.0	156.0	327.0	104.0
03	530.0	92.0	190.0	186.0
04	211.0	451.0	221.0	115.0
05	72.0	682.0	235.0	9.0
06	186.0	798.0	13.0	1.0
07	2.0	2.0	994.0	0.0
08	1.0	3.0	993.0	1.0
09	993.0	2.0	1.0	2.0
10	983.0	2.0	4.0	9.0
11	62.0	56.0	876.0	4.0
12	111.0	264.0	60.0	563.0
13	191.0	168.0	550.0	89.0

PFM

	A	C	G	T
01	0.211	0.291	0.399	0.099
02	0.412	0.156	0.328	0.104
03	0.531	0.092	0.19	0.186
04	0.211	0.452	0.221	0.115
05	0.072	0.683	0.235	0.009
06	0.186	0.8	0.013	0.001
07	0.002	0.002	0.996	0.0
08	0.001	0.003	0.995	0.001
09	0.995	0.002	0.001	0.002
10	0.985	0.002	0.004	0.009
11	0.062	0.056	0.878	0.004
12	0.111	0.265	0.06	0.564
13	0.191	0.168	0.551	0.089

PWM

	A	C	G	T
01	-0.166	0.149	0.464	-0.914
02	0.496	-0.465	0.269	-0.865
03	0.75	-0.986	-0.27	-0.291
04	-0.166	0.589	-0.12	-0.767
05	-1.226	1.001	-0.059	-3.154
06	-0.291	1.158	-2.837	-4.523
07	-4.211	-4.211	1.377	-4.98
08	-4.523	-3.973	1.376	-4.523
09	1.376	-4.211	-4.523	-4.211
10	1.366	-4.211	-3.781	-3.154
11	-1.372	-1.471	1.251	-3.781
12	-0.801	0.056	-1.404	0.81
13	-0.265	-0.392	0.787	-1.019

Standard thresholds

P-value	Threshold
0.001	3.665415
0.0005	4.87772
0.0001	7.34876