ELK4.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELK4.H12INVITRO.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	10
Consensus	dMCGGAARbn
GC content	57.59%
Information content (bits; total / per base)	11.356 / 1.136
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9438

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)	0.913	0.968	0.865	0.94	0.873	0.936	3.403	4.012	88.886	270.495

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.991	0.986	0.986	0.978	0.974	0.962
Overall, 3 experiments	best	0.995	0.991	0.991	0.985	0.982	0.974
Methyl HT-SELEX, 1 experiments	median	0.991	0.986	0.986	0.978	0.974	0.962
Methyl HT-SELEX, 1 experiments	best	0.991	0.986	0.986	0.978	0.974	0.962
Non-Methyl HT-SELEX, 2 experiments	median	0.983	0.973	0.94	0.928	0.858	0.86
Non-Methyl HT-SELEX, 2 experiments	best	0.995	0.991	0.991	0.985	0.982	0.974

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.959	0.897	0.931	0.7

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.H12INVITRO.0.PSM.A.pcm
PWM	ELK4.H12INVITRO.0.PSM.A.pwm
PFM	ELK4.H12INVITRO.0.PSM.A.pfm
Alignment	ELK4.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	ELK4.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	ELK4.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	ELK4.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	ELK4.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	ELK4.H12INVITRO.0.PSM.A_homer_format_0.001.txt ELK4.H12INVITRO.0.PSM.A_homer_format_0.0005.txt ELK4.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	4806.5	1044.5	1680.5	1906.5
02	846.0	7348.0	842.0	402.0
03	188.0	9193.0	30.0	27.0
04	0.0	0.0	9438.0	0.0
05	0.0	0.0	9438.0	0.0
06	9438.0	0.0	0.0	0.0
07	7806.0	56.0	12.0	1564.0
08	2606.0	535.0	6091.0	206.0
09	783.25	2759.25	947.25	4948.25
10	2561.25	1799.25	3143.25	1934.25

PFM

	A	C	G	T
01	0.509	0.111	0.178	0.202
02	0.09	0.779	0.089	0.043
03	0.02	0.974	0.003	0.003
04	0.0	0.0	1.0	0.0
05	0.0	0.0	1.0	0.0
06	1.0	0.0	0.0	0.0
07	0.827	0.006	0.001	0.166
08	0.276	0.057	0.645	0.022
09	0.083	0.292	0.1	0.524
10	0.271	0.191	0.333	0.205

PWM

	A	C	G	T
01	0.711	-0.814	-0.339	-0.213
02	-1.024	1.135	-1.029	-1.765
03	-2.519	1.359	-4.292	-4.39
04	-6.939	-6.939	1.386	-6.939
05	-6.939	-6.939	1.386	-6.939
06	1.386	-6.939	-6.939	-6.939
07	1.196	-3.702	-5.108	-0.411
08	0.099	-1.481	0.948	-2.428
09	-1.101	0.156	-0.911	0.74
10	0.082	-0.271	0.287	-0.199

Standard thresholds

P-value	Threshold
0.001	4.21532
0.0005	5.504
0.0001	7.589905