ELK1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ELK1.H12INVITRO.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	11
Consensus	nRCCGGAAGTn
GC content	57.13%
Information content (bits; total / per base)	14.171 / 1.288
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9706

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)	0.908	0.964	0.88	0.944	0.872	0.95	3.98	4.737	179.167	366.553
Mouse	1 (2)	0.867	0.872	0.829	0.837	0.84	0.849	3.458	3.535	78.937	81.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 11 experiments	median	0.997	0.995	0.98	0.978	0.817	0.838
Overall, 11 experiments	best	1.0	1.0	0.998	0.997	0.996	0.994
Methyl HT-SELEX, 3 experiments	median	0.997	0.995	0.995	0.991	0.99	0.985
Methyl HT-SELEX, 3 experiments	best	0.999	0.997	0.997	0.995	0.994	0.991
Non-Methyl HT-SELEX, 8 experiments	median	0.996	0.994	0.967	0.968	0.784	0.815
Non-Methyl HT-SELEX, 8 experiments	best	1.0	1.0	0.998	0.997	0.996	0.994

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.994	0.917	0.967	0.626
batch 2	0.878	0.778	0.872	0.744

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.H12INVITRO.0.PSM.A.pcm
PWM	ELK1.H12INVITRO.0.PSM.A.pwm
PFM	ELK1.H12INVITRO.0.PSM.A.pfm
Alignment	ELK1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	ELK1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	ELK1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	ELK1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	ELK1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	ELK1.H12INVITRO.0.PSM.A_homer_format_0.001.txt ELK1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt ELK1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3205.0	2144.0	2188.0	2169.0
02	5951.75	495.75	2065.75	1192.75
03	143.0	9026.0	446.0	91.0
04	56.0	9630.0	13.0	7.0
05	0.0	0.0	9706.0	0.0
06	0.0	0.0	9668.0	38.0
07	9705.0	1.0	0.0	0.0
08	9492.0	4.0	3.0	207.0
09	640.0	468.0	8542.0	56.0
10	359.75	1426.75	266.75	7652.75
11	2747.0	1697.0	3200.0	2062.0

PFM

	A	C	G	T
01	0.33	0.221	0.225	0.223
02	0.613	0.051	0.213	0.123
03	0.015	0.93	0.046	0.009
04	0.006	0.992	0.001	0.001
05	0.0	0.0	1.0	0.0
06	0.0	0.0	0.996	0.004
07	1.0	0.0	0.0	0.0
08	0.978	0.0	0.0	0.021
09	0.066	0.048	0.88	0.006
10	0.037	0.147	0.027	0.788
11	0.283	0.175	0.33	0.212

PWM

	A	C	G	T
01	0.278	-0.124	-0.103	-0.112
02	0.897	-1.584	-0.161	-0.709
03	-2.816	1.313	-1.69	-3.259
04	-3.73	1.378	-5.068	-5.566
05	-6.964	-6.964	1.386	-6.964
06	-6.964	-6.964	1.382	-4.099
07	1.385	-6.603	-6.964	-6.964
08	1.363	-5.955	-6.128	-2.451
09	-1.33	-1.642	1.258	-3.73
10	-1.903	-0.53	-2.2	1.148
11	0.124	-0.357	0.276	-0.163

Standard thresholds

P-value	Threshold
0.001	1.948155
0.0005	3.53776
0.0001	6.77752