E2F4.H12INVIVO.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	E2F4.H12INVIVO.1.P.B
Gene (human)	E2F4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	E2f4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	13
Consensus	bndSGCGGGARvn
GC content	66.26%
Information content (bits; total / per base)	11.487 / 0.884
Data sources	ChIP-Seq
Aligned words	1000

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	8 (56)	0.797	0.858	0.654	0.748	0.785	0.853	2.494	3.034	117.744	228.31
Mouse	12 (81)	0.818	0.908	0.673	0.796	0.749	0.917	2.293	3.89	82.244	227.42

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.689	0.654	0.692	0.657	0.68	0.649
Non-Methyl HT-SELEX, 2 experiments	best	0.875	0.802	0.888	0.812	0.867	0.799

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.617	0.086	0.333	0.207

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: 3.3.2.1.4
HGNC	HGNC:3118
MGI	MGI:103012
EntrezGene (human)	GeneID:1874 (SSTAR profile)
EntrezGene (mouse)	GeneID:104394 (SSTAR profile)
UniProt ID (human)	E2F4_HUMAN
UniProt ID (mouse)	E2F4_MOUSE
UniProt AC (human)	Q16254 (TFClass)
UniProt AC (mouse)	Q8R0K9 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	8 human, 12 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	E2F4.H12INVIVO.1.P.B.pcm
PWM	E2F4.H12INVIVO.1.P.B.pwm
PFM	E2F4.H12INVIVO.1.P.B.pfm
Alignment	E2F4.H12INVIVO.1.P.B.words.tsv
Threshold to P-value map	E2F4.H12INVIVO.1.P.B.thr
Motif in other formats
JASPAR format	E2F4.H12INVIVO.1.P.B_jaspar_format.txt
MEME format	E2F4.H12INVIVO.1.P.B_meme_format.meme
Transfac format	E2F4.H12INVIVO.1.P.B_transfac_format.txt
Homer format	E2F4.H12INVIVO.1.P.B_homer_format_0.001.txt E2F4.H12INVIVO.1.P.B_homer_format_0.0005.txt E2F4.H12INVIVO.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	166.0	237.0	428.0	169.0
02	298.0	178.0	292.0	232.0
03	228.0	98.0	349.0	325.0
04	69.0	243.0	684.0	4.0
05	7.0	27.0	962.0	4.0
06	20.0	973.0	3.0	4.0
07	9.0	7.0	970.0	14.0
08	7.0	185.0	805.0	3.0
09	9.0	64.0	910.0	17.0
10	890.0	67.0	35.0	8.0
11	741.0	33.0	190.0	36.0
12	456.0	192.0	222.0	130.0
13	277.0	225.0	235.0	263.0

PFM

	A	C	G	T
01	0.166	0.237	0.428	0.169
02	0.298	0.178	0.292	0.232
03	0.228	0.098	0.349	0.325
04	0.069	0.243	0.684	0.004
05	0.007	0.027	0.962	0.004
06	0.02	0.973	0.003	0.004
07	0.009	0.007	0.97	0.014
08	0.007	0.185	0.805	0.003
09	0.009	0.064	0.91	0.017
10	0.89	0.067	0.035	0.008
11	0.741	0.033	0.19	0.036
12	0.456	0.192	0.222	0.13
13	0.277	0.225	0.235	0.263

PWM

	A	C	G	T
01	-0.406	-0.053	0.535	-0.388
02	0.175	-0.337	0.154	-0.074
03	-0.091	-0.926	0.332	0.261
04	-1.27	-0.028	1.002	-3.783
05	-3.362	-2.171	1.342	-3.783
06	-2.45	1.354	-3.975	-3.783
07	-3.156	-3.362	1.351	-2.773
08	-3.362	-0.299	1.165	-3.975
09	-3.156	-1.343	1.287	-2.598
10	1.265	-1.298	-1.925	-3.253
11	1.082	-1.981	-0.272	-1.898
12	0.598	-0.262	-0.118	-0.648
13	0.102	-0.105	-0.061	0.05

Standard thresholds

P-value	Threshold
0.001	4.28846
0.0005	5.268715
0.0001	7.31