ELK3.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELK3.H12INVITRO.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	nRCCGGAARYn
GC content	53.98%
Information content (bits; total / per base)	12.28 / 1.116
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	8306

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)	0.942	0.947	0.908	0.914	0.911	0.918	3.777	3.835	234.194	268.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 10 experiments	median	0.997	0.995	0.993	0.989	0.955	0.95
Overall, 10 experiments	best	0.999	0.998	0.998	0.996	0.995	0.992
Methyl HT-SELEX, 3 experiments	median	0.999	0.998	0.997	0.995	0.987	0.984
Methyl HT-SELEX, 3 experiments	best	0.999	0.998	0.997	0.996	0.991	0.988
Non-Methyl HT-SELEX, 7 experiments	median	0.972	0.967	0.806	0.815	0.654	0.689
Non-Methyl HT-SELEX, 7 experiments	best	0.999	0.998	0.998	0.996	0.995	0.992

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.982	0.895	0.951	0.624
batch 2	0.875	0.641	0.869	0.689

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.H12INVITRO.0.PSM.A.pcm
PWM	ELK3.H12INVITRO.0.PSM.A.pwm
PFM	ELK3.H12INVITRO.0.PSM.A.pfm
Alignment	ELK3.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	ELK3.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	ELK3.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	ELK3.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	ELK3.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	ELK3.H12INVITRO.0.PSM.A_homer_format_0.001.txt ELK3.H12INVITRO.0.PSM.A_homer_format_0.0005.txt ELK3.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3091.0	1652.0	1974.0	1589.0
02	5667.0	406.0	1370.0	863.0
03	650.0	6722.0	638.0	296.0
04	298.0	7705.0	140.0	163.0
05	1.0	0.0	8298.0	7.0
06	0.0	0.0	8300.0	6.0
07	8263.0	2.0	0.0	41.0
08	7374.0	110.0	79.0	743.0
09	1230.0	560.0	6251.0	265.0
10	565.0	1156.0	360.0	6225.0
11	2589.5	1325.5	2268.5	2122.5

PFM

	A	C	G	T
01	0.372	0.199	0.238	0.191
02	0.682	0.049	0.165	0.104
03	0.078	0.809	0.077	0.036
04	0.036	0.928	0.017	0.02
05	0.0	0.0	0.999	0.001
06	0.0	0.0	0.999	0.001
07	0.995	0.0	0.0	0.005
08	0.888	0.013	0.01	0.089
09	0.148	0.067	0.753	0.032
10	0.068	0.139	0.043	0.749
11	0.312	0.16	0.273	0.256

PWM

	A	C	G	T
01	0.397	-0.228	-0.051	-0.267
02	1.003	-1.628	-0.415	-0.876
03	-1.159	1.174	-1.178	-1.942
04	-1.935	1.31	-2.682	-2.532
05	-6.459	-6.826	1.385	-5.414
06	-6.826	-6.826	1.385	-5.529
07	1.38	-6.191	-6.826	-3.872
08	1.266	-2.919	-3.242	-1.026
09	-0.523	-1.308	1.101	-2.051
10	-1.299	-0.585	-1.747	1.097
11	0.221	-0.448	0.088	0.022

Standard thresholds

P-value	Threshold
0.001	3.903365
0.0005	5.040475
0.0001	7.23765