E2F4.H12RSNP.2.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	E2F4.H12RSNP.2.S.B
Gene (human)	E2F4 (GeneCards)
Gene synonyms (human)
Gene (mouse)	E2f4
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	14
Consensus	dKGGCGCCMhhhhn
GC content	60.46%
Information content (bits; total / per base)	12.5 / 0.893
Data sources	HT-SELEX
Aligned words	389

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)	0.692	0.766	0.489	0.538	0.459	0.547	1.002	1.192	29.266	45.357
Mouse	12 (81)	0.74	0.785	0.562	0.614	0.466	0.525	1.08	1.368	24.276	69.076

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.748	0.757	0.74	0.746	0.736	0.736
Non-Methyl HT-SELEX, 2 experiments	best	0.998	0.997	0.992	0.989	0.98	0.973

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.574	0.123	0.414	0.287

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.2.S.B.pcm
PWM	E2F4.H12RSNP.2.S.B.pwm
PFM	E2F4.H12RSNP.2.S.B.pfm
Alignment	E2F4.H12RSNP.2.S.B.words.tsv
Threshold to P-value map	E2F4.H12RSNP.2.S.B.thr
Motif in other formats
JASPAR format	E2F4.H12RSNP.2.S.B_jaspar_format.txt
MEME format	E2F4.H12RSNP.2.S.B_meme_format.meme
Transfac format	E2F4.H12RSNP.2.S.B_transfac_format.txt
Homer format	E2F4.H12RSNP.2.S.B_homer_format_0.001.txt E2F4.H12RSNP.2.S.B_homer_format_0.0005.txt E2F4.H12RSNP.2.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	80.25	48.25	131.25	129.25
02	49.75	27.75	75.75	235.75
03	20.75	44.75	320.75	2.75
04	0.0	0.0	388.0	1.0
05	0.0	389.0	0.0	0.0
06	0.0	0.0	389.0	0.0
07	0.0	388.0	0.0	1.0
08	0.0	329.0	39.0	21.0
09	249.0	75.0	14.0	51.0
10	184.0	54.0	14.0	137.0
11	168.0	42.0	27.0	152.0
12	135.0	79.0	34.0	141.0
13	91.5	139.5	41.5	116.5
14	83.0	137.0	65.0	104.0

PFM

	A	C	G	T
01	0.206	0.124	0.337	0.332
02	0.128	0.071	0.195	0.606
03	0.053	0.115	0.825	0.007
04	0.0	0.0	0.997	0.003
05	0.0	1.0	0.0	0.0
06	0.0	0.0	1.0	0.0
07	0.0	0.997	0.0	0.003
08	0.0	0.846	0.1	0.054
09	0.64	0.193	0.036	0.131
10	0.473	0.139	0.036	0.352
11	0.432	0.108	0.069	0.391
12	0.347	0.203	0.087	0.362
13	0.235	0.359	0.107	0.299
14	0.213	0.352	0.167	0.267

PWM

	A	C	G	T
01	-0.189	-0.686	0.296	0.281
02	-0.656	-1.217	-0.246	0.877
03	-1.491	-0.759	1.183	-3.148
04	-4.193	-4.193	1.372	-3.68
05	-4.193	1.375	-4.193	-4.193
06	-4.193	-4.193	1.375	-4.193
07	-4.193	1.372	-4.193	-3.68
08	-4.193	1.208	-0.891	-1.479
09	0.931	-0.255	-1.852	-0.632
10	0.631	-0.576	-1.852	0.338
11	0.54	-0.82	-1.243	0.441
12	0.324	-0.204	-1.023	0.367
13	-0.06	0.356	-0.832	0.178
14	-0.156	0.338	-0.395	0.066

Standard thresholds

P-value	Threshold
0.001	3.92566
0.0005	5.10511
0.0001	7.38751