E2F4.H13RSNP.1.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	E2F4.H13RSNP.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	bnvddSGCGGGRv
GC content	72.01%
Information content (bits; total / per base)	9.709 / 0.747
Data sources	ChIP-Seq
Aligned words	1089
Previous names	E2F4.H12RSNP.1.P.B

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)	0.787	0.833	0.592	0.67	0.816	0.874	2.712	3.103	83.201	177.796
Mouse	12 (81)	0.794	0.877	0.622	0.75	0.776	0.924	2.469	3.669	57.137	179.108

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.628	0.583	0.637	0.591	0.635	0.592
Non-Methyl HT-SELEX, 2 experiments	best	0.75	0.66	0.777	0.681	0.772	0.684

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.628	0.075	0.37	0.26

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	E2F4.H13RSNP.1.P.B.pcm
PWM	E2F4.H13RSNP.1.P.B.pwm
PFM	E2F4.H13RSNP.1.P.B.pfm
Threshold to P-value map	E2F4.H13RSNP.1.P.B.thr
Motif in other formats
JASPAR format	E2F4.H13RSNP.1.P.B_jaspar_format.txt
MEME format	E2F4.H13RSNP.1.P.B_meme_format.meme
Transfac format	E2F4.H13RSNP.1.P.B_transfac_format.txt
Homer format	E2F4.H13RSNP.1.P.B_homer_format_0.001.txt E2F4.H13RSNP.1.P.B_homer_format_0.0005.txt E2F4.H13RSNP.1.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	176.0	288.0	427.0	198.0
02	276.0	291.0	347.0	175.0
03	188.0	236.0	545.0	120.0
04	317.0	141.0	419.0	212.0
05	225.0	102.0	519.0	243.0
06	78.0	195.0	801.0	15.0
07	19.0	36.0	1027.0	7.0
08	34.0	1027.0	5.0	23.0
09	34.0	18.0	983.0	54.0
10	18.0	153.0	879.0	39.0
11	66.0	49.0	964.0	10.0
12	731.0	120.0	229.0	9.0
13	619.0	202.0	191.0	77.0

PFM

	A	C	G	T
01	0.162	0.264	0.392	0.182
02	0.253	0.267	0.319	0.161
03	0.173	0.217	0.5	0.11
04	0.291	0.129	0.385	0.195
05	0.207	0.094	0.477	0.223
06	0.072	0.179	0.736	0.014
07	0.017	0.033	0.943	0.006
08	0.031	0.943	0.005	0.021
09	0.031	0.017	0.903	0.05
10	0.017	0.14	0.807	0.036
11	0.061	0.045	0.885	0.009
12	0.671	0.11	0.21	0.008
13	0.568	0.185	0.175	0.071

PWM

	A	C	G	T
01	-0.433	0.056	0.448	-0.316
02	0.014	0.066	0.241	-0.438
03	-0.367	-0.142	0.691	-0.811
04	0.151	-0.652	0.429	-0.248
05	-0.189	-0.971	0.642	-0.113
06	-1.234	-0.331	1.075	-2.795
07	-2.581	-1.982	1.323	-3.444
08	-2.037	1.323	-3.704	-2.404
09	-2.037	-2.63	1.279	-1.592
10	-2.63	-0.571	1.168	-1.906
11	-1.397	-1.686	1.26	-3.149
12	0.984	-0.811	-0.172	-3.238
13	0.818	-0.296	-0.352	-1.247

Standard thresholds

P-value	Threshold
0.001	4.77071
0.0005	5.58961
0.0001	7.28103