ISMARA results: Etv3_Erf_Fev_Elk4_Elk1

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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Etv3_Erf_Fev_Elk4_Elk1_Elk3

Z-value: 2.64

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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
Elk4	rn6_v1_chr13_+_48790951_48790951	-0.85	1.3e-89	Click!
Etv3	rn6_v1_chr2_+_186872520_186872572	-0.78	7.4e-66	Click!
Elk3	rn6_v1_chr7_-_34121694_34121694	-0.52	1.5e-23	Click!
Elk1	rn6_v1_chrX_+_1297099_1297099	0.32	3.4e-09	Click!
Fev	rn6_v1_chr9_-_82146874_82146874	0.12	3.2e-02	Click!
Erf	rn6_v1_chr1_-_82120902_82120902	-0.02	6.7e-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
chr10_-_34166599 Show fit	260.79	ENSRNOT00000003246	Trim41 NCBI RGD Ensembl Show fit	tripartite motif-containing 41
chr8_-_65587427 Show fit	159.49	ENSRNOT00000016491	Lrrc49 NCBI RGD Ensembl Show fit	leucine rich repeat containing 49
chr13_-_37287458 Show fit	142.63	ENSRNOT00000003391	Insig2 NCBI RGD Ensembl Show fit	insulin induced gene 2
chr8_-_65587658 Show fit	134.50	ENSRNOT00000091982	Lrrc49 NCBI RGD Ensembl Show fit	leucine rich repeat containing 49
chr20_+_5125349 Show fit	104.95	ENSRNOT00000085598 ENSRNOT00000001129	Bag6 NCBI RGD Ensembl Show fit	BCL2-associated athanogene 6
chr6_+_104291071 Show fit	99.00	ENSRNOT00000006798	Slc39a9 NCBI RGD Ensembl Show fit	solute carrier family 39, member 9
chr15_-_34352673 Show fit	93.98	ENSRNOT00000064916	Nedd8 NCBI RGD Ensembl Show fit	neural precursor cell expressed, developmentally down-regulated 8
chr2_+_115337439 Show fit	90.83	ENSRNOT00000015779	Eif5a2 NCBI RGD Ensembl Show fit	eukaryotic translation initiation factor 5A2
chr6_-_104290579 Show fit	87.48	ENSRNOT00000066014	Erh NCBI RGD Ensembl Show fit	enhancer of rudimentary homolog (Drosophila)
chr16_+_21275311 Show fit	85.25	ENSRNOT00000027980	LOC100911483 NCBI RGD Ensembl Show fit	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13-like

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
2.4	198.4	GO:0006888	ER to Golgi vesicle-mediated transport(GO:0006888)
4.7	174.3	GO:0006890	retrograde vesicle-mediated transport, Golgi to ER(GO:0006890)
42.3	169.3	GO:0036506	maintenance of unfolded protein(GO:0036506) maintenance of unfolded protein involved in ERAD pathway(GO:1904378)
14.9	164.4	GO:0032933	SREBP signaling pathway(GO:0032933) cellular response to sterol depletion(GO:0071501)
1.2	158.7	GO:0006626	protein targeting to mitochondrion(GO:0006626)
7.8	141.2	GO:0051131	chaperone-mediated protein complex assembly(GO:0051131)
22.0	131.8	GO:0006449	regulation of translational termination(GO:0006449)
3.4	131.0	GO:0045747	positive regulation of Notch signaling pathway(GO:0045747)
5.4	123.3	GO:0045116	protein neddylation(GO:0045116)
3.7	121.4	GO:0042773	ATP synthesis coupled electron transport(GO:0042773)

Showing 1 to 10 of 409 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
1.3	736.1	GO:0044429	mitochondrial part(GO:0044429)
0.1	397.9	GO:0016021	integral component of membrane(GO:0016021)
7.2	368.2	GO:0005747	mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
0.3	308.6	GO:0005739	mitochondrion(GO:0005739)
3.9	232.4	GO:0000315	organellar large ribosomal subunit(GO:0000315) mitochondrial large ribosomal subunit(GO:0005762)
0.2	228.4	GO:0005783	endoplasmic reticulum(GO:0005783)
44.1	176.2	GO:0072379	BAT3 complex(GO:0071818) ER membrane insertion complex(GO:0072379)
5.2	151.1	GO:0000421	autophagosome membrane(GO:0000421)
10.5	146.9	GO:0030127	COPII vesicle coat(GO:0030127)
17.9	143.0	GO:0031595	nuclear proteasome complex(GO:0031595)

Showing 1 to 10 of 224 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
3.4	304.1	GO:0051082	unfolded protein binding(GO:0051082)
9.2	248.4	GO:0050136	NADH dehydrogenase (ubiquinone) activity(GO:0008137) NADH dehydrogenase (quinone) activity(GO:0050136)
0.3	246.8	GO:0008270	zinc ion binding(GO:0008270)
14.4	231.1	GO:0051787	misfolded protein binding(GO:0051787)
0.5	189.5	GO:0019787	ubiquitin-like protein transferase activity(GO:0019787)
1.9	188.7	GO:0008565	protein transporter activity(GO:0008565)
0.6	180.9	GO:0031625	ubiquitin protein ligase binding(GO:0031625)
13.5	148.9	GO:0016783	sulfurtransferase activity(GO:0016783)
0.8	116.3	GO:0017137	Rab GTPase binding(GO:0017137)
0.5	115.4	GO:0008236	serine-type peptidase activity(GO:0008236)

Showing 1 to 10 of 283 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
2.6	107.2	PID HIV NEF PATHWAY	HIV-1 Nef: Negative effector of Fas and TNF-alpha
5.9	100.3	PID ERB GENOMIC PATHWAY	Validated nuclear estrogen receptor beta network
3.0	78.6	PID ARF 3PATHWAY	Arf1 pathway
1.1	71.7	PID MTOR 4PATHWAY	mTOR signaling pathway
2.9	64.6	PID SYNDECAN 3 PATHWAY	Syndecan-3-mediated signaling events
1.7	59.9	PID CDC42 REG PATHWAY	Regulation of CDC42 activity
1.3	56.9	PID ERBB1 INTERNALIZATION PATHWAY	Internalization of ErbB1
1.2	43.2	PID FRA PATHWAY	Validated transcriptional targets of AP1 family members Fra1 and Fra2
1.1	36.4	PID SYNDECAN 2 PATHWAY	Syndecan-2-mediated signaling events
1.2	34.1	PID LIS1 PATHWAY	Lissencephaly gene (LIS1) in neuronal migration and development

Showing 1 to 10 of 53 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
5.6	343.0	REACTOME RESPIRATORY ELECTRON TRANSPORT	Genes involved in Respiratory electron transport
5.9	307.3	REACTOME CROSS PRESENTATION OF SOLUBLE EXOGENOUS ANTIGENS ENDOSOMES	Genes involved in Cross-presentation of soluble exogenous antigens (endosomes)
2.6	163.5	REACTOME METABOLISM OF VITAMINS AND COFACTORS	Genes involved in Metabolism of vitamins and cofactors
5.3	142.9	REACTOME PREFOLDIN MEDIATED TRANSFER OF SUBSTRATE TO CCT TRIC	Genes involved in Prefoldin mediated transfer of substrate to CCT/TriC
3.4	140.9	REACTOME MITOCHONDRIAL PROTEIN IMPORT	Genes involved in Mitochondrial Protein Import
7.5	135.6	REACTOME CITRIC ACID CYCLE TCA CYCLE	Genes involved in Citric acid cycle (TCA cycle)
7.1	114.2	REACTOME FORMATION OF ATP BY CHEMIOSMOTIC COUPLING	Genes involved in Formation of ATP by chemiosmotic coupling
3.9	94.4	REACTOME PTM GAMMA CARBOXYLATION HYPUSINE FORMATION AND ARYLSULFATASE ACTIVATION	Genes involved in PTM: gamma carboxylation, hypusine formation and arylsulfatase activation
2.0	86.3	REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S	Genes involved in Activation of Chaperone Genes by XBP1(S)
8.5	85.4	REACTOME INTEGRATION OF PROVIRUS	Genes involved in Integration of provirus

Showing 1 to 10 of 90 entries

Results for Etv3_Erf_Fev_Elk4_Elk1_Elk3

Z-value: 2.64

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: