E2F4.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	E2F4.H12RSNP.0.P.B
Gene (human)	E2F4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	E2f4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	15
Consensus	SGCGSSvvndbbvvv
GC content	67.24%
Information content (bits; total / per base)	8.309 / 0.554
Data sources	ChIP-Seq
Aligned words	1018

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)	0.817	0.873	0.666	0.791	0.78	0.828	2.394	3.224	136.342	250.432
Mouse	12 (81)	0.813	0.853	0.64	0.696	0.723	0.822	2.074	2.554	106.167	250.42

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.717	0.694	0.711	0.687	0.697	0.674
Non-Methyl HT-SELEX, 2 experiments	best	0.935	0.888	0.925	0.876	0.897	0.849

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.645	0.098	0.403	0.288

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.H12RSNP.0.P.B.pcm
PWM	E2F4.H12RSNP.0.P.B.pwm
PFM	E2F4.H12RSNP.0.P.B.pfm
Alignment	E2F4.H12RSNP.0.P.B.words.tsv
Threshold to P-value map	E2F4.H12RSNP.0.P.B.thr
Motif in other formats
JASPAR format	E2F4.H12RSNP.0.P.B_jaspar_format.txt
MEME format	E2F4.H12RSNP.0.P.B_meme_format.meme
Transfac format	E2F4.H12RSNP.0.P.B_transfac_format.txt
Homer format	E2F4.H12RSNP.0.P.B_homer_format_0.001.txt E2F4.H12RSNP.0.P.B_homer_format_0.0005.txt E2F4.H12RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	84.0	341.0	551.0	42.0
02	9.0	98.0	894.0	17.0
03	30.0	967.0	5.0	16.0
04	25.0	47.0	931.0	15.0
05	40.0	426.0	536.0	16.0
06	53.0	206.0	726.0	33.0
07	504.0	264.0	212.0	38.0
08	460.0	130.0	335.0	93.0
09	316.0	286.0	218.0	198.0
10	179.0	152.0	251.0	436.0
11	69.0	217.0	282.0	450.0
12	72.0	346.0	292.0	308.0
13	276.0	273.0	410.0	59.0
14	521.0	108.0	306.0	83.0
15	428.0	201.0	256.0	133.0

PFM

	A	C	G	T
01	0.083	0.335	0.541	0.041
02	0.009	0.096	0.878	0.017
03	0.029	0.95	0.005	0.016
04	0.025	0.046	0.915	0.015
05	0.039	0.418	0.527	0.016
06	0.052	0.202	0.713	0.032
07	0.495	0.259	0.208	0.037
08	0.452	0.128	0.329	0.091
09	0.31	0.281	0.214	0.194
10	0.176	0.149	0.247	0.428
11	0.068	0.213	0.277	0.442
12	0.071	0.34	0.287	0.303
13	0.271	0.268	0.403	0.058
14	0.512	0.106	0.301	0.082
15	0.42	0.197	0.251	0.131

PWM

	A	C	G	T
01	-1.095	0.291	0.769	-1.768
02	-3.173	-0.944	1.252	-2.616
03	-2.089	1.33	-3.639	-2.671
04	-2.26	-1.66	1.292	-2.729
05	-1.815	0.512	0.741	-2.671
06	-1.544	-0.21	1.044	-1.998
07	0.68	0.036	-0.181	-1.864
08	0.589	-0.665	0.273	-0.995
09	0.215	0.116	-0.154	-0.249
10	-0.349	-0.511	-0.014	0.536
11	-1.287	-0.158	0.102	0.567
12	-1.246	0.305	0.137	0.19
13	0.081	0.07	0.474	-1.44
14	0.713	-0.848	0.183	-1.107
15	0.517	-0.234	0.006	-0.643

Standard thresholds

P-value	Threshold
0.001	5.01716
0.0005	5.74346
0.0001	7.17416