ELK1.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELK1.H12INVIVO.0.PSM.A
Gene (human)	ELK1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Elk1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	vCCGGAAGYS
GC content	63.5%
Information content (bits; total / per base)	13.688 / 1.369
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	999

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 (33)	0.903	0.966	0.873	0.945	0.875	0.955	4.055	4.804	179.585	379.699
Mouse	1 (2)	0.865	0.871	0.826	0.835	0.85	0.859	3.536	3.625	78.248	81.237

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 11 experiments	median	0.996	0.992	0.974	0.966	0.8	0.825
Overall, 11 experiments	best	0.999	0.999	0.998	0.996	0.995	0.993
Methyl HT-SELEX, 3 experiments	median	0.996	0.992	0.994	0.99	0.99	0.984
Methyl HT-SELEX, 3 experiments	best	0.997	0.996	0.996	0.994	0.992	0.989
Non-Methyl HT-SELEX, 8 experiments	median	0.995	0.992	0.961	0.959	0.768	0.804
Non-Methyl HT-SELEX, 8 experiments	best	0.999	0.999	0.998	0.996	0.995	0.993

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.987	0.836	0.964	0.591
batch 2	0.863	0.764	0.837	0.704

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: 3.5.2.2.1
HGNC	HGNC:3321
MGI	MGI:101833
EntrezGene (human)	GeneID:2002 (SSTAR profile)
EntrezGene (mouse)	GeneID:13712 (SSTAR profile)
UniProt ID (human)	ELK1_HUMAN
UniProt ID (mouse)	ELK1_MOUSE
UniProt AC (human)	P19419 (TFClass)
UniProt AC (mouse)	P41969 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	5 human, 1 mouse
HT-SELEX	8
Methyl-HT-SELEX	3

PCM	ELK1.H12INVIVO.0.PSM.A.pcm
PWM	ELK1.H12INVIVO.0.PSM.A.pwm
PFM	ELK1.H12INVIVO.0.PSM.A.pfm
Alignment	ELK1.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	ELK1.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	ELK1.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	ELK1.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	ELK1.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	ELK1.H12INVIVO.0.PSM.A_homer_format_0.001.txt ELK1.H12INVIVO.0.PSM.A_homer_format_0.0005.txt ELK1.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	388.0	153.0	364.0	94.0
02	29.0	868.0	95.0	7.0
03	65.0	929.0	0.0	5.0
04	3.0	1.0	993.0	2.0
05	2.0	1.0	996.0	0.0
06	994.0	2.0	2.0	1.0
07	986.0	0.0	0.0	13.0
08	52.0	18.0	924.0	5.0
09	33.0	211.0	30.0	725.0
10	126.0	151.0	606.0	116.0

PFM

	A	C	G	T
01	0.388	0.153	0.364	0.094
02	0.029	0.869	0.095	0.007
03	0.065	0.93	0.0	0.005
04	0.003	0.001	0.994	0.002
05	0.002	0.001	0.997	0.0
06	0.995	0.002	0.002	0.001
07	0.987	0.0	0.0	0.013
08	0.052	0.018	0.925	0.005
09	0.033	0.211	0.03	0.726
10	0.126	0.151	0.607	0.116

PWM

	A	C	G	T
01	0.438	-0.486	0.375	-0.966
02	-2.102	1.241	-0.955	-3.361
03	-1.327	1.309	-4.981	-3.621
04	-3.974	-4.524	1.375	-4.212
05	-4.212	-4.524	1.378	-4.981
06	1.376	-4.212	-4.212	-4.524
07	1.368	-4.981	-4.981	-2.838
08	-1.543	-2.545	1.303	-3.621
09	-1.98	-0.167	-2.07	1.061
10	-0.677	-0.499	0.882	-0.759

Standard thresholds

P-value	Threshold
0.001	3.049975
0.0005	4.32694
0.0001	6.95297