ELK3.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELK3.H12CORE.0.PSM.A
Gene (human)	ELK3 (GeneCards)
Gene synonyms (human)	NET, SAP2
Gene (mouse)	Elk3
Gene synonyms (mouse)	Erp, Net
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	nRCCGGAAGYn
GC content	57.23%
Information content (bits; total / per base)	14.09 / 1.281
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9589

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	1 (7)	0.944	0.953	0.912	0.923	0.914	0.923	3.839	3.898	250.097	278.509

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.997	0.996	0.993	0.99	0.956	0.951
Overall, 10 experiments	best	0.999	0.998	0.997	0.996	0.994	0.992
Methyl HT-SELEX, 3 experiments	median	0.999	0.997	0.997	0.995	0.987	0.983
Methyl HT-SELEX, 3 experiments	best	0.999	0.998	0.997	0.995	0.991	0.987
Non-Methyl HT-SELEX, 7 experiments	median	0.973	0.968	0.808	0.816	0.656	0.69
Non-Methyl HT-SELEX, 7 experiments	best	0.999	0.998	0.997	0.996	0.994	0.992

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.986	0.958	0.973	0.694
batch 2	0.882	0.745	0.875	0.717

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	ELK-like {3.5.2.2} (TFClass)
TFClass ID	TFClass: 3.5.2.2.2
HGNC	HGNC:3325
MGI	MGI:101762
EntrezGene (human)	GeneID:2004 (SSTAR profile)
EntrezGene (mouse)	GeneID:13713 (SSTAR profile)
UniProt ID (human)	ELK3_HUMAN
UniProt ID (mouse)	ELK3_MOUSE
UniProt AC (human)	P41970 (TFClass)
UniProt AC (mouse)	P41971 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	7
Methyl-HT-SELEX	3

PCM	ELK3.H12CORE.0.PSM.A.pcm
PWM	ELK3.H12CORE.0.PSM.A.pwm
PFM	ELK3.H12CORE.0.PSM.A.pfm
Alignment	ELK3.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	ELK3.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	ELK3.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	ELK3.H12CORE.0.PSM.A_meme_format.meme
Transfac format	ELK3.H12CORE.0.PSM.A_transfac_format.txt
Homer format	ELK3.H12CORE.0.PSM.A_homer_format_0.001.txt ELK3.H12CORE.0.PSM.A_homer_format_0.0005.txt ELK3.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2954.75	2598.75	1950.75	2084.75
02	5632.75	220.75	2167.75	1567.75
03	215.0	8692.0	658.0	24.0
04	120.0	9469.0	0.0	0.0
05	0.0	0.0	9589.0	0.0
06	0.0	0.0	9588.0	1.0
07	9589.0	0.0	0.0	0.0
08	9398.0	1.0	0.0	190.0
09	938.0	282.0	8354.0	15.0
10	187.75	1959.75	299.75	7141.75
11	2920.5	1472.5	3057.5	2138.5

PFM

	A	C	G	T
01	0.308	0.271	0.203	0.217
02	0.587	0.023	0.226	0.163
03	0.022	0.906	0.069	0.003
04	0.013	0.987	0.0	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	1.0	0.0
07	1.0	0.0	0.0	0.0
08	0.98	0.0	0.0	0.02
09	0.098	0.029	0.871	0.002
10	0.02	0.204	0.031	0.745
11	0.305	0.154	0.319	0.223

PWM

	A	C	G	T
01	0.209	0.081	-0.206	-0.14
02	0.854	-2.376	-0.101	-0.424
03	-2.402	1.287	-1.29	-4.514
04	-2.977	1.373	-6.954	-6.954
05	-6.954	-6.954	1.386	-6.954
06	-6.954	-6.954	1.385	-6.592
07	1.386	-6.954	-6.954	-6.954
08	1.365	-6.592	-6.954	-2.524
09	-0.937	-2.133	1.248	-4.933
10	-2.536	-0.201	-2.072	1.091
11	0.197	-0.487	0.243	-0.114

Standard thresholds

P-value	Threshold
0.001	1.61958
0.0005	3.33768
0.0001	6.83165