ELK3.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELK3.H12INVIVO.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	vSCGGAAGYSv
GC content	67.05%
Information content (bits; total / per base)	13.243 / 1.204
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
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	1 (7)	0.949	0.957	0.912	0.918	0.927	0.931	3.98	4.105	267.553	308.276

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.996	0.993	0.992	0.988	0.942	0.935
Overall, 10 experiments	best	0.998	0.995	0.995	0.992	0.991	0.986
Methyl HT-SELEX, 3 experiments	median	0.996	0.993	0.994	0.99	0.977	0.971
Methyl HT-SELEX, 3 experiments	best	0.997	0.995	0.995	0.992	0.984	0.979
Non-Methyl HT-SELEX, 7 experiments	median	0.996	0.993	0.991	0.987	0.906	0.911
Non-Methyl HT-SELEX, 7 experiments	best	0.998	0.995	0.995	0.991	0.991	0.986

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.986	0.937	0.965	0.62
batch 2	0.863	0.683	0.855	0.684

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.H12INVIVO.0.PSM.A.pcm
PWM	ELK3.H12INVIVO.0.PSM.A.pwm
PFM	ELK3.H12INVIVO.0.PSM.A.pfm
Alignment	ELK3.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	ELK3.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	ELK3.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	ELK3.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	ELK3.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	ELK3.H12INVIVO.0.PSM.A_homer_format_0.001.txt ELK3.H12INVIVO.0.PSM.A_homer_format_0.0005.txt ELK3.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	278.0	187.0	459.0	76.0
02	56.0	745.0	181.0	18.0
03	45.0	945.0	5.0	5.0
04	5.0	2.0	991.0	2.0
05	6.0	2.0	988.0	4.0
06	996.0	1.0	2.0	1.0
07	968.0	3.0	9.0	20.0
08	42.0	34.0	916.0	8.0
09	56.0	309.0	35.0	600.0
10	114.0	150.0	652.0	84.0
11	181.0	251.0	509.0	59.0

PFM

	A	C	G	T
01	0.278	0.187	0.459	0.076
02	0.056	0.745	0.181	0.018
03	0.045	0.945	0.005	0.005
04	0.005	0.002	0.991	0.002
05	0.006	0.002	0.988	0.004
06	0.996	0.001	0.002	0.001
07	0.968	0.003	0.009	0.02
08	0.042	0.034	0.916	0.008
09	0.056	0.309	0.035	0.6
10	0.114	0.15	0.652	0.084
11	0.181	0.251	0.509	0.059

PWM

	A	C	G	T
01	0.105	-0.288	0.604	-1.175
02	-1.473	1.087	-0.32	-2.546
03	-1.684	1.325	-3.622	-3.622
04	-3.622	-4.213	1.372	-4.213
05	-3.484	-4.213	1.369	-3.783
06	1.377	-4.525	-4.213	-4.525
07	1.349	-3.975	-3.156	-2.45
08	-1.75	-1.952	1.294	-3.253
09	-1.473	0.211	-1.925	0.871
10	-0.777	-0.506	0.954	-1.077
11	-0.32	0.004	0.707	-1.422

Standard thresholds

P-value	Threshold
0.001	3.461455
0.0005	4.61222
0.0001	7.021415