E2F1.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	E2F1.H12RSNP.0.P.B
Gene (human)	E2F1 (GeneCards)
Gene synonyms (human)	RBBP3
Gene (mouse)	E2f1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	13
Consensus	nvndSGCGGGARv
GC content	66.12%
Information content (bits; total / per base)	11.171 / 0.859
Data sources	ChIP-Seq
Aligned words	992

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	29 (176)	0.825	0.88	0.69	0.765	0.807	0.873	2.655	3.064	110.586	297.143
Mouse	2 (12)	0.784	0.825	0.658	0.695	0.681	0.747	2.137	2.339	42.416	89.585

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 3 experiments	median	0.651	0.587	0.591	0.573	0.528	0.549
Non-Methyl HT-SELEX, 3 experiments	best	0.721	0.671	0.615	0.593	0.573	0.553

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.869	3.559	0.111	0.065

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Fork head/winged helix factors {3.3} (TFClass)
TF family	E2F {3.3.2} (TFClass)
TF subfamily	E2F {3.3.2.1} (TFClass)
TFClass ID	TFClass: 3.3.2.1.1
HGNC	HGNC:3113
MGI	MGI:101941
EntrezGene (human)	GeneID:1869 (SSTAR profile)
EntrezGene (mouse)	GeneID:13555 (SSTAR profile)
UniProt ID (human)	E2F1_HUMAN
UniProt ID (mouse)	E2F1_MOUSE
UniProt AC (human)	Q01094 (TFClass)
UniProt AC (mouse)	Q61501 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	29 human, 2 mouse
HT-SELEX	3
Methyl-HT-SELEX	0

PCM	E2F1.H12RSNP.0.P.B.pcm
PWM	E2F1.H12RSNP.0.P.B.pwm
PFM	E2F1.H12RSNP.0.P.B.pfm
Alignment	E2F1.H12RSNP.0.P.B.words.tsv
Threshold to P-value map	E2F1.H12RSNP.0.P.B.thr
Motif in other formats
JASPAR format	E2F1.H12RSNP.0.P.B_jaspar_format.txt
MEME format	E2F1.H12RSNP.0.P.B_meme_format.meme
Transfac format	E2F1.H12RSNP.0.P.B_transfac_format.txt
Homer format	E2F1.H12RSNP.0.P.B_homer_format_0.001.txt E2F1.H12RSNP.0.P.B_homer_format_0.0005.txt E2F1.H12RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	324.0	254.0	275.0	139.0
02	228.0	220.0	411.0	133.0
03	287.0	213.0	227.0	265.0
04	196.0	101.0	458.0	237.0
05	79.0	222.0	687.0	4.0
06	53.0	9.0	928.0	2.0
07	29.0	956.0	2.0	5.0
08	6.0	9.0	915.0	62.0
09	13.0	187.0	788.0	4.0
10	30.0	86.0	867.0	9.0
11	918.0	24.0	45.0	5.0
12	719.0	32.0	222.0	19.0
13	457.0	157.0	232.0	146.0

PFM

	A	C	G	T
01	0.327	0.256	0.277	0.14
02	0.23	0.222	0.414	0.134
03	0.289	0.215	0.229	0.267
04	0.198	0.102	0.462	0.239
05	0.08	0.224	0.693	0.004
06	0.053	0.009	0.935	0.002
07	0.029	0.964	0.002	0.005
08	0.006	0.009	0.922	0.063
09	0.013	0.189	0.794	0.004
10	0.03	0.087	0.874	0.009
11	0.925	0.024	0.045	0.005
12	0.725	0.032	0.224	0.019
13	0.461	0.158	0.234	0.147

PWM

	A	C	G	T
01	0.266	0.024	0.103	-0.574
02	-0.083	-0.119	0.502	-0.617
03	0.145	-0.151	-0.088	0.066
04	-0.233	-0.888	0.61	-0.045
05	-1.129	-0.11	1.014	-3.776
06	-1.518	-3.148	1.315	-4.205
07	-2.095	1.344	-4.205	-3.615
08	-3.476	-3.148	1.3	-1.366
09	-2.831	-0.28	1.151	-3.776
10	-2.063	-1.046	1.247	-3.148
11	1.304	-2.273	-1.676	-3.615
12	1.06	-2.002	-0.11	-2.489
13	0.608	-0.453	-0.066	-0.525

Standard thresholds

P-value	Threshold
0.001	4.41451
0.0005	5.36396
0.0001	7.31367