ISMARA results: Etv3_Erf_Fev_Elk4_Elk1

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GSE49485: Hypoxia transcriptome sequencing of rat brain.

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Results for Etv3_Erf_Fev_Elk4_Elk1_Elk3

Z-value: 1.42

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Transcription factors associated with Etv3_Erf_Fev_Elk4_Elk1_Elk3

Gene Symbol	Gene ID	Gene Info
Etv3 NCBI RGD Ensembl	ENSRNOG00000043095	ets variant 3
Erf NCBI RGD Ensembl	ENSRNOG00000020426	Ets2 repressor factor
Fev NCBI RGD Ensembl	ENSRNOG00000017856	FEV, ETS transcription factor
Elk4 NCBI RGD Ensembl	ENSRNOG00000007887	ELK4, ETS transcription factor
Elk1 NCBI RGD Ensembl	ENSRNOG00000010171	ELK1, ETS transcription factor
Elk3 NCBI RGD Ensembl	ENSRNOG00000004367	ELK3, ETS-domain protein

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
Etv3	rn6_v1_chr2_+_186872520_186872572	0.97	5.4e-03	Click!
Elk1	rn6_v1_chrX_+_1297099_1297099	0.82	9.1e-02	Click!
Fev	rn6_v1_chr9_-_82146874_82146874	-0.81	9.4e-02	Click!
Elk4	rn6_v1_chr13_+_48790509_48790509	0.76	1.3e-01	Click!
Erf	rn6_v1_chr1_-_82120902_82120902	0.57	3.2e-01	Click!
Elk3	rn6_v1_chr7_-_34121694_34121694	0.50	3.9e-01	Click!

Activity profile of Etv3_Erf_Fev_Elk4_Elk1_Elk3 motif

Sorted Z-values of Etv3_Erf_Fev_Elk4_Elk1_Elk3 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr15_-_57805184 Show fit	2.66	ENSRNOT00000000168	Cog3 NCBI RGD Ensembl Show fit	component of oligomeric golgi complex 3
chr6_+_104291071 Show fit	2.04	ENSRNOT00000006798	Slc39a9 NCBI RGD Ensembl Show fit	solute carrier family 39, member 9
chr6_-_108796124 Show fit	1.67	ENSRNOT00000086545	Arel1 NCBI RGD Ensembl Show fit	apoptosis resistant E3 ubiquitin protein ligase 1
chr16_+_71058022 Show fit	1.47	ENSRNOT00000066901	Bag4 NCBI RGD Ensembl Show fit	BCL2-associated athanogene 4
chr3_-_164239250 Show fit	1.35	ENSRNOT00000012604	Spata2 NCBI RGD Ensembl Show fit	spermatogenesis associated 2
chr11_+_61531416 Show fit	1.34	ENSRNOT00000093263	Atp6v1a NCBI RGD Ensembl Show fit	ATPase H+ transporting V1 subunit A
chr9_+_14551758 Show fit	1.26	ENSRNOT00000017157	Nfya NCBI RGD Ensembl Show fit	nuclear transcription factor Y subunit alpha
chr8_-_21968415 Show fit	1.25	ENSRNOT00000067325 ENSRNOT00000064932	Dnmt1 NCBI RGD Ensembl Show fit	DNA methyltransferase 1
chr4_+_34282625 Show fit	1.22	ENSRNOT00000011138 ENSRNOT00000086735	Glcci1 NCBI RGD Ensembl Show fit	glucocorticoid induced 1
chr4_+_157523110 Show fit	1.21	ENSRNOT00000081640	Zfp384 NCBI RGD Ensembl Show fit	zinc finger protein 384

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of Etv3_Erf_Fev_Elk4_Elk1_Elk3

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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
0.1	2.9	GO:0000301	retrograde transport, vesicle recycling within Golgi(GO:0000301)
0.1	2.5	GO:0006829	zinc II ion transport(GO:0006829)
0.2	1.5	GO:0090367	negative regulation of mRNA modification(GO:0090367) negative regulation of protein targeting to mitochondrion(GO:1903215)
0.2	1.4	GO:0006449	regulation of translational termination(GO:0006449)
0.2	1.4	GO:1901096	regulation of autophagosome maturation(GO:1901096)
0.3	1.3	GO:0090309	positive regulation of methylation-dependent chromatin silencing(GO:0090309)
0.0	1.3	GO:0015991	ATP hydrolysis coupled proton transport(GO:0015991)
0.0	1.3	GO:0031338	regulation of vesicle fusion(GO:0031338)
0.1	1.2	GO:0033234	negative regulation of protein sumoylation(GO:0033234)
0.0	1.2	GO:0007257	activation of JUN kinase activity(GO:0007257)

Showing 1 to 10 of 216 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	2.9	GO:0017119	Golgi transport complex(GO:0017119)
0.0	2.6	GO:0071013	catalytic step 2 spliceosome(GO:0071013)
0.1	1.5	GO:0033180	proton-transporting V-type ATPase, V1 domain(GO:0033180)
0.2	1.3	GO:0016602	CCAAT-binding factor complex(GO:0016602)
0.1	1.3	GO:0005697	telomerase holoenzyme complex(GO:0005697)
0.0	1.3	GO:0005721	pericentric heterochromatin(GO:0005721)
0.2	1.2	GO:1990316	ATG1/ULK1 kinase complex(GO:1990316)
0.4	1.1	GO:0032937	SREBP-SCAP-Insig complex(GO:0032937)
0.1	1.1	GO:0008290	F-actin capping protein complex(GO:0008290)
0.1	1.1	GO:0030914	STAGA complex(GO:0030914)

Showing 1 to 10 of 114 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	3.1	GO:0017137	Rab GTPase binding(GO:0017137)
0.0	2.4	GO:0017124	SH3 domain binding(GO:0017124)
0.2	1.9	GO:0008432	JUN kinase binding(GO:0008432)
0.0	1.8	GO:0003724	RNA helicase activity(GO:0003724) ATP-dependent RNA helicase activity(GO:0004004)
0.2	1.7	GO:0071253	connexin binding(GO:0071253)
0.3	1.3	GO:0003886	DNA (cytosine-5-)-methyltransferase activity(GO:0003886)
0.1	1.3	GO:0046961	proton-transporting ATPase activity, rotational mechanism(GO:0046961)
0.1	1.2	GO:0017056	structural constituent of nuclear pore(GO:0017056)
0.1	1.1	GO:0034450	ubiquitin-ubiquitin ligase activity(GO:0034450)
0.1	1.1	GO:0016805	dipeptidase activity(GO:0016805)

Showing 1 to 10 of 140 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	2.5	PID HIV NEF PATHWAY	HIV-1 Nef: Negative effector of Fas and TNF-alpha
0.0	1.4	PID FANCONI PATHWAY	Fanconi anemia pathway
0.0	1.4	PID RB 1PATHWAY	Regulation of retinoblastoma protein
0.0	1.3	PID MYC REPRESS PATHWAY	Validated targets of C-MYC transcriptional repression
0.0	1.1	ST GRANULE CELL SURVIVAL PATHWAY	Granule Cell Survival Pathway is a specific case of more general PAC1 Receptor Pathway.
0.0	0.8	PID MYC PATHWAY	C-MYC pathway
0.0	0.8	PID GMCSF PATHWAY	GMCSF-mediated signaling events
0.0	0.8	PID RAC1 REG PATHWAY	Regulation of RAC1 activity
0.0	0.7	PID DNA PK PATHWAY	DNA-PK pathway in nonhomologous end joining
0.0	0.6	PID TCR JNK PATHWAY	JNK signaling in the CD4+ TCR pathway

Showing 1 to 10 of 27 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	2.6	REACTOME GENERIC TRANSCRIPTION PATHWAY	Genes involved in Generic Transcription Pathway
0.1	1.3	REACTOME INSULIN RECEPTOR RECYCLING	Genes involved in Insulin receptor recycling
0.1	1.2	REACTOME ACTIVATION OF CHAPERONE GENES BY ATF6 ALPHA	Genes involved in Activation of Chaperone Genes by ATF6-alpha
0.0	1.1	REACTOME TRANSPORT OF RIBONUCLEOPROTEINS INTO THE HOST NUCLEUS	Genes involved in Transport of Ribonucleoproteins into the Host Nucleus
0.0	1.0	REACTOME CELL SURFACE INTERACTIONS AT THE VASCULAR WALL	Genes involved in Cell surface interactions at the vascular wall
0.0	0.9	REACTOME RNA POL I TRANSCRIPTION INITIATION	Genes involved in RNA Polymerase I Transcription Initiation
0.1	0.8	REACTOME SIGNAL ATTENUATION	Genes involved in Signal attenuation
0.0	0.7	REACTOME PKA MEDIATED PHOSPHORYLATION OF CREB	Genes involved in PKA-mediated phosphorylation of CREB
0.0	0.7	REACTOME METABOLISM OF VITAMINS AND COFACTORS	Genes involved in Metabolism of vitamins and cofactors
0.0	0.6	REACTOME PROCESSING OF INTRONLESS PRE MRNAS	Genes involved in Processing of Intronless Pre-mRNAs

Showing 1 to 10 of 42 entries

Results for Etv3_Erf_Fev_Elk4_Elk1_Elk3

Z-value: 1.42

Motif logo

Transcription factors associated with Etv3_Erf_Fev_Elk4_Elk1_Elk3

Activity-expression correlation:

Activity profile of Etv3_Erf_Fev_Elk4_Elk1_Elk3 motif

Sorted Z-values of Etv3_Erf_Fev_Elk4_Elk1_Elk3 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of Etv3_Erf_Fev_Elk4_Elk1_Elk3

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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: