ELK4.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELK4.H12RSNP.0.PSM.A
Gene (human)	ELK4 (GeneCards)
Gene synonyms (human)	SAP1
Gene (mouse)	Elk4
Gene synonyms (mouse)	Sap1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	nWCCGGAAGYn
GC content	56.33%
Information content (bits; total / per base)	13.962 / 1.269
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	6422

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	5 (31)	0.906	0.966	0.854	0.934	0.866	0.935	3.358	3.992	83.638	254.523

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.991	0.986	0.985	0.976	0.973	0.96
Overall, 3 experiments	best	0.994	0.99	0.991	0.985	0.981	0.973
Methyl HT-SELEX, 1 experiments	median	0.991	0.986	0.985	0.976	0.973	0.96
Methyl HT-SELEX, 1 experiments	best	0.991	0.986	0.985	0.976	0.973	0.96
Non-Methyl HT-SELEX, 2 experiments	median	0.97	0.957	0.912	0.901	0.835	0.838
Non-Methyl HT-SELEX, 2 experiments	best	0.994	0.99	0.991	0.985	0.981	0.973

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.963	0.919	0.936	0.682

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: 3.5.2.2.3
HGNC	HGNC:3326
MGI	MGI:102853
EntrezGene (human)	GeneID:2005 (SSTAR profile)
EntrezGene (mouse)	GeneID:13714 (SSTAR profile)
UniProt ID (human)	ELK4_HUMAN
UniProt ID (mouse)	ELK4_MOUSE
UniProt AC (human)	P28324 (TFClass)
UniProt AC (mouse)	P41158 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	5 human, 0 mouse
HT-SELEX	2
Methyl-HT-SELEX	1

PCM	ELK4.H12RSNP.0.PSM.A.pcm
PWM	ELK4.H12RSNP.0.PSM.A.pwm
PFM	ELK4.H12RSNP.0.PSM.A.pfm
Alignment	ELK4.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	ELK4.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	ELK4.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	ELK4.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	ELK4.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	ELK4.H12RSNP.0.PSM.A_homer_format_0.001.txt ELK4.H12RSNP.0.PSM.A_homer_format_0.0005.txt ELK4.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2094.25	1523.25	1466.25	1338.25
02	4411.25	305.25	807.25	898.25
03	115.0	6210.0	95.0	2.0
04	10.0	6412.0	0.0	0.0
05	0.0	0.0	6422.0	0.0
06	0.0	0.0	6422.0	0.0
07	6422.0	0.0	0.0	0.0
08	6071.0	0.0	0.0	351.0
09	1859.0	44.0	4516.0	3.0
10	217.75	1750.75	299.75	4153.75
11	1786.75	1111.75	2408.75	1114.75

PFM

	A	C	G	T
01	0.326	0.237	0.228	0.208
02	0.687	0.048	0.126	0.14
03	0.018	0.967	0.015	0.0
04	0.002	0.998	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	0.945	0.0	0.0	0.055
09	0.289	0.007	0.703	0.0
10	0.034	0.273	0.047	0.647
11	0.278	0.173	0.375	0.174

PWM

	A	C	G	T
01	0.265	-0.053	-0.091	-0.182
02	1.01	-1.654	-0.686	-0.58
03	-2.619	1.352	-2.806	-5.949
04	-4.882	1.384	-6.598	-6.598
05	-6.598	-6.598	1.385	-6.598
06	-6.598	-6.598	1.385	-6.598
07	1.385	-6.598	-6.598	-6.598
08	1.329	-6.598	-6.598	-1.516
09	0.146	-3.55	1.033	-5.735
10	-1.989	0.086	-1.672	0.95
11	0.107	-0.367	0.405	-0.364

Standard thresholds

P-value	Threshold
0.001	1.427945
0.0005	3.05331
0.0001	6.885265