ISMARA results: E2f3

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for E2f3

Z-value: 0.82

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Transcription factors associated with E2f3

Gene Symbol	Gene ID	Gene Info
E2f3 NCBI RGD Ensembl	ENSRNOG00000029273	E2F transcription factor 3

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
E2f3	rn6_v1_chr17_+_36334147_36334147	0.52	3.0e-23	Click!

Activity profile of E2f3 motif

Sorted Z-values of E2f3 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr7_-_121302740 Show fit	18.72	ENSRNOT00000067032	Rpl3 NCBI RGD Ensembl Show fit	ribosomal protein L3
chr13_-_45068077 Show fit	18.56	ENSRNOT00000004969	Mcm6 NCBI RGD Ensembl Show fit	minichromosome maintenance complex component 6
chr3_+_100366168 Show fit	14.44	ENSRNOT00000006689	Kif18a NCBI RGD Ensembl Show fit	kinesin family member 18A
chr12_-_51877624 Show fit	14.28	ENSRNOT00000056800	Chek2 NCBI RGD Ensembl Show fit	checkpoint kinase 2
chr8_-_13262729 Show fit	14.01	ENSRNOT00000012176	Fut4 NCBI RGD Ensembl Show fit	fucosyltransferase 4
chr6_-_92760018 Show fit	13.68	ENSRNOT00000009560	Trim9 NCBI RGD Ensembl Show fit	tripartite motif-containing 9
chr14_+_91783514 Show fit	13.59	ENSRNOT00000080753	Ikzf1 NCBI RGD Ensembl Show fit	IKAROS family zinc finger 1
chr10_-_108196217 Show fit	13.07	ENSRNOT00000075440	Cbx4 NCBI RGD Ensembl Show fit	chromobox 4
chr10_-_89454681 Show fit	13.03	ENSRNOT00000028109	Brca1 NCBI RGD Ensembl Show fit	BRCA1, DNA repair associated
chr3_+_146695344 Show fit	13.00	ENSRNOT00000010955	Gins1 NCBI RGD Ensembl Show fit	GINS complex subunit 1

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of E2f3

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.6	20.5	GO:0071353	cellular response to interleukin-4(GO:0071353)
2.7	18.6	GO:0006268	DNA unwinding involved in DNA replication(GO:0006268)
1.9	17.4	GO:0019985	translesion synthesis(GO:0019985)
3.6	14.3	GO:1903463	regulation of mitotic cell cycle DNA replication(GO:1903463)
1.0	14.0	GO:0036065	fucosylation(GO:0036065)
1.7	13.8	GO:0002439	chronic inflammatory response to antigenic stimulus(GO:0002439)
0.5	13.8	GO:0072520	seminiferous tubule development(GO:0072520)
4.6	13.7	GO:0035544	negative regulation of SNARE complex assembly(GO:0035544)
3.4	13.6	GO:0045658	regulation of neutrophil differentiation(GO:0045658)
4.3	13.0	GO:2000620	positive regulation of histone H4-K16 acetylation(GO:2000620)

Showing 1 to 10 of 148 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	31.7	GO:0005730	nucleolus(GO:0005730)
0.3	26.7	GO:0022625	cytosolic large ribosomal subunit(GO:0022625)
2.0	22.5	GO:0042555	MCM complex(GO:0042555)
0.4	16.2	GO:0016592	mediator complex(GO:0016592)
0.1	15.7	GO:0000781	chromosome, telomeric region(GO:0000781)
1.6	14.4	GO:0005828	kinetochore microtubule(GO:0005828)
0.2	14.0	GO:0032580	Golgi cisterna membrane(GO:0032580)
0.1	13.7	GO:0008021	synaptic vesicle(GO:0008021)
0.9	13.6	GO:0031618	nuclear pericentric heterochromatin(GO:0031618)
0.9	13.1	GO:0035102	PRC1 complex(GO:0035102)

Showing 1 to 10 of 87 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	28.5	GO:0005509	calcium ion binding(GO:0005509)
0.8	23.5	GO:0003887	DNA-directed DNA polymerase activity(GO:0003887)
1.7	21.6	GO:0008097	5S rRNA binding(GO:0008097)
1.0	18.6	GO:0004003	ATP-dependent DNA helicase activity(GO:0004003)
0.6	16.7	GO:0008187	poly-pyrimidine tract binding(GO:0008187)
0.8	14.7	GO:0019789	SUMO transferase activity(GO:0019789)
0.3	14.7	GO:0001105	RNA polymerase II transcription coactivator activity(GO:0001105)
0.9	14.5	GO:0050811	GABA receptor binding(GO:0050811)
0.9	14.4	GO:0008574	ATP-dependent microtubule motor activity, plus-end-directed(GO:0008574)
1.3	14.2	GO:0000014	single-stranded DNA endodeoxyribonuclease activity(GO:0000014)

Showing 1 to 10 of 103 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.0	46.3	PID ATM PATHWAY	ATM pathway
0.4	24.4	PID NFAT TFPATHWAY	Calcineurin-regulated NFAT-dependent transcription in lymphocytes
0.3	23.4	PID RB 1PATHWAY	Regulation of retinoblastoma protein
0.0	11.4	NABA SECRETED FACTORS	Genes encoding secreted soluble factors
0.2	8.8	PID PLK1 PATHWAY	PLK1 signaling events
0.2	8.2	PID E2F PATHWAY	E2F transcription factor network
0.2	7.6	PID RHOA PATHWAY	RhoA signaling pathway
0.4	6.6	PID CIRCADIAN PATHWAY	Circadian rhythm pathway
0.2	6.2	PID INTEGRIN2 PATHWAY	Beta2 integrin cell surface interactions
0.3	5.0	PID ANTHRAX PATHWAY	Cellular roles of Anthrax toxin

Showing 1 to 10 of 22 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
2.9	31.6	REACTOME UNWINDING OF DNA	Genes involved in Unwinding of DNA
1.4	28.1	REACTOME G1 S SPECIFIC TRANSCRIPTION	Genes involved in G1/S-Specific Transcription
0.3	28.0	REACTOME PEPTIDE CHAIN ELONGATION	Genes involved in Peptide chain elongation
0.5	14.4	REACTOME KINESINS	Genes involved in Kinesins
1.3	14.3	REACTOME G2 M DNA DAMAGE CHECKPOINT	Genes involved in G2/M DNA damage checkpoint
0.5	13.1	REACTOME SULFUR AMINO ACID METABOLISM	Genes involved in Sulfur amino acid metabolism
0.8	13.0	REACTOME HOMOLOGOUS RECOMBINATION REPAIR OF REPLICATION INDEPENDENT DOUBLE STRAND BREAKS	Genes involved in Homologous recombination repair of replication-independent double-strand breaks
0.8	12.8	REACTOME REPAIR SYNTHESIS FOR GAP FILLING BY DNA POL IN TC NER	Genes involved in Repair synthesis for gap-filling by DNA polymerase in TC-NER
0.2	11.8	REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS	Genes involved in Golgi Associated Vesicle Biogenesis
0.3	10.8	REACTOME MEIOTIC RECOMBINATION	Genes involved in Meiotic Recombination

Showing 1 to 10 of 53 entries

Results for E2f3

Z-value: 0.82

Motif logo

Transcription factors associated with E2f3

Activity-expression correlation:

Activity profile of E2f3 motif

Sorted Z-values of E2f3 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of E2f3

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Gene overrepresentation in cellular component category:

Gene overrepresentation in molecular function category:

Gene overrepresentation in curated gene sets: canonical pathways category:

Gene overrepresentation in curated gene sets: REACTOME pathways category: