ELF2.H12RSNP.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELF2.H12RSNP.0.PS.A
Gene (human)	ELF2 (GeneCards)
Gene synonyms (human)	NERF
Gene (mouse)	Elf2
Gene synonyms (mouse)	Nerf
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	dvSCGGAAGYRv
GC content	61.89%
Information content (bits; total / per base)	12.962 / 1.08
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1001

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	2 (11)	0.88	0.935	0.819	0.881	0.87	0.954	3.494	4.638	39.018	88.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.996	0.993	0.993	0.988	0.984	0.977
Overall, 5 experiments	best	1.0	0.999	0.999	0.999	0.998	0.997
Methyl HT-SELEX, 2 experiments	median	0.996	0.993	0.99	0.986	0.917	0.921
Methyl HT-SELEX, 2 experiments	best	0.996	0.993	0.993	0.988	0.984	0.977
Non-Methyl HT-SELEX, 3 experiments	median	0.998	0.996	0.996	0.994	0.993	0.989
Non-Methyl HT-SELEX, 3 experiments	best	1.0	0.999	0.999	0.999	0.998	0.997

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.981	0.751	0.957	0.584
batch 2	0.881	0.717	0.901	0.673

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: 3.5.2.3.2
HGNC	HGNC:3317
MGI	MGI:1916507
EntrezGene (human)	GeneID:1998 (SSTAR profile)
EntrezGene (mouse)	GeneID:69257 (SSTAR profile)
UniProt ID (human)	ELF2_HUMAN
UniProt ID (mouse)	ELF2_MOUSE
UniProt AC (human)	Q15723 (TFClass)
UniProt AC (mouse)	Q9JHC9 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	2

PCM	ELF2.H12RSNP.0.PS.A.pcm
PWM	ELF2.H12RSNP.0.PS.A.pwm
PFM	ELF2.H12RSNP.0.PS.A.pfm
Alignment	ELF2.H12RSNP.0.PS.A.words.tsv
Threshold to P-value map	ELF2.H12RSNP.0.PS.A.thr
Motif in other formats
JASPAR format	ELF2.H12RSNP.0.PS.A_jaspar_format.txt
MEME format	ELF2.H12RSNP.0.PS.A_meme_format.meme
Transfac format	ELF2.H12RSNP.0.PS.A_transfac_format.txt
Homer format	ELF2.H12RSNP.0.PS.A_homer_format_0.001.txt ELF2.H12RSNP.0.PS.A_homer_format_0.0005.txt ELF2.H12RSNP.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	472.0	136.0	222.0	171.0
02	272.0	332.0	313.0	84.0
03	51.0	690.0	244.0	16.0
04	147.0	837.0	9.0	8.0
05	3.0	2.0	994.0	2.0
06	3.0	0.0	998.0	0.0
07	993.0	3.0	2.0	3.0
08	991.0	1.0	3.0	6.0
09	62.0	13.0	925.0	1.0
10	100.0	234.0	44.0	623.0
11	155.0	121.0	629.0	96.0
12	241.0	189.0	493.0	78.0

PFM

	A	C	G	T
01	0.472	0.136	0.222	0.171
02	0.272	0.332	0.313	0.084
03	0.051	0.689	0.244	0.016
04	0.147	0.836	0.009	0.008
05	0.003	0.002	0.993	0.002
06	0.003	0.0	0.997	0.0
07	0.992	0.003	0.002	0.003
08	0.99	0.001	0.003	0.006
09	0.062	0.013	0.924	0.001
10	0.1	0.234	0.044	0.622
11	0.155	0.121	0.628	0.096
12	0.241	0.189	0.493	0.078

PWM

	A	C	G	T
01	0.631	-0.604	-0.119	-0.378
02	0.083	0.281	0.222	-1.078
03	-1.564	1.01	-0.025	-2.654
04	-0.527	1.203	-3.157	-3.254
05	-3.976	-4.214	1.374	-4.214
06	-3.976	-4.983	1.378	-4.983
07	1.373	-3.976	-4.214	-3.976
08	1.371	-4.526	-3.976	-3.485
09	-1.375	-2.84	1.302	-4.526
10	-0.907	-0.067	-1.707	0.908
11	-0.475	-0.719	0.918	-0.947
12	-0.037	-0.278	0.675	-1.151

Standard thresholds

P-value	Threshold
0.001	3.46211
0.0005	4.66396
0.0001	7.225095