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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for irf10+irf8+irf9
Z-value: 0.82
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Transcription factors associated with irf10+irf8+irf9
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| irf9 | dr11_v1_chr12_+_13282797_13282807 | 0.95 | 1.1e-09 | Click! |
| irf10 | dr11_v1_chr23_+_642001_642052 | 0.91 | 1.5e-07 | Click! |
| irf8 | dr11_v1_chr18_+_30567945_30567945 | 0.62 | 6.3e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr6_+_59029485 Show fit | 2.59 |
ENSDART00000050140
|
|
|
| chr2_+_52122663 Show fit | 2.52 |
ENSDART00000111266
|
theg spermatid protein |
|
| chr4_-_13567387 Show fit | 2.26 |
ENSDART00000132971
ENSDART00000102010 |
Mdm1 nuclear protein homolog (mouse) |
|
| chr10_-_34889053 Show fit | 2.25 |
ENSDART00000136966
|
coiled-coil domain containing 169 |
|
| chr13_-_37608441 Show fit | 2.24 |
ENSDART00000140230
|
zgc:123068 |
|
| chr24_+_37902687 Show fit | 2.17 |
ENSDART00000042273
|
coiled-coil domain containing 78 |
|
| chr19_-_7115229 Show fit | 2.02 |
ENSDART00000001930
|
proteasome subunit beta 13a |
|
| chr8_-_50525360 Show fit | 1.91 |
ENSDART00000175648
|
|
|
| chr10_+_5060191 Show fit | 1.85 |
ENSDART00000145908
ENSDART00000122397 |
coactivator-associated arginine methyltransferase 1, like |
|
| chr12_-_30583668 Show fit | 1.84 |
ENSDART00000153406
|
caspase 7, apoptosis-related cysteine peptidase |
Network of associatons between targets according to the STRING database.
First level regulatory network of irf10+irf8+irf9
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 7.6 | GO:0010499 | proteasomal ubiquitin-independent protein catabolic process(GO:0010499) |
| 0.3 | 2.3 | GO:0046600 | negative regulation of centriole replication(GO:0046600) |
| 0.0 | 2.2 | GO:0014904 | myotube cell development(GO:0014904) skeletal muscle fiber development(GO:0048741) |
| 0.0 | 1.7 | GO:0006635 | fatty acid beta-oxidation(GO:0006635) |
| 0.1 | 1.6 | GO:0043535 | regulation of blood vessel endothelial cell migration(GO:0043535) |
| 0.3 | 1.5 | GO:0032689 | negative regulation of interferon-gamma production(GO:0032689) CD4-positive, alpha-beta T cell proliferation(GO:0035739) regulation of CD4-positive, alpha-beta T cell proliferation(GO:2000561) negative regulation of CD4-positive, alpha-beta T cell proliferation(GO:2000562) |
| 0.2 | 1.5 | GO:0098773 | skin epidermis development(GO:0098773) |
| 0.1 | 1.5 | GO:0045824 | negative regulation of innate immune response(GO:0045824) |
| 0.1 | 1.4 | GO:0006825 | copper ion transport(GO:0006825) |
| 0.1 | 1.3 | GO:0018216 | peptidyl-arginine methylation(GO:0018216) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 7.6 | GO:0005839 | proteasome core complex(GO:0005839) |
| 0.0 | 1.8 | GO:0005814 | centriole(GO:0005814) |
| 0.2 | 1.5 | GO:0042612 | MHC class I protein complex(GO:0042612) |
| 0.2 | 1.5 | GO:0090533 | sodium:potassium-exchanging ATPase complex(GO:0005890) cation-transporting ATPase complex(GO:0090533) |
| 0.2 | 0.9 | GO:0008537 | proteasome activator complex(GO:0008537) |
| 0.1 | 0.9 | GO:0009331 | glycerol-3-phosphate dehydrogenase complex(GO:0009331) |
| 0.2 | 0.7 | GO:0044611 | nuclear pore inner ring(GO:0044611) |
| 0.1 | 0.6 | GO:0071439 | clathrin complex(GO:0071439) |
| 0.0 | 0.5 | GO:0030125 | clathrin vesicle coat(GO:0030125) |
| 0.0 | 0.5 | GO:0043186 | P granule(GO:0043186) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 6.1 | GO:0004298 | threonine-type endopeptidase activity(GO:0004298) threonine-type peptidase activity(GO:0070003) |
| 0.3 | 1.9 | GO:0035242 | protein-arginine omega-N asymmetric methyltransferase activity(GO:0035242) |
| 0.1 | 1.8 | GO:0097200 | cysteine-type endopeptidase activity involved in execution phase of apoptosis(GO:0097200) |
| 0.2 | 1.7 | GO:0004300 | enoyl-CoA hydratase activity(GO:0004300) |
| 0.1 | 1.5 | GO:0016936 | galactoside binding(GO:0016936) |
| 0.1 | 1.5 | GO:0001671 | ATPase activator activity(GO:0001671) |
| 0.1 | 1.4 | GO:0016724 | ferroxidase activity(GO:0004322) oxidoreductase activity, oxidizing metal ions, oxygen as acceptor(GO:0016724) |
| 0.0 | 1.3 | GO:0004869 | cysteine-type endopeptidase inhibitor activity(GO:0004869) |
| 0.0 | 1.2 | GO:0005164 | tumor necrosis factor receptor binding(GO:0005164) |
| 0.0 | 1.0 | GO:0048020 | CCR chemokine receptor binding(GO:0048020) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.7 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
| 0.0 | 1.5 | PID CD8 TCR DOWNSTREAM PATHWAY | Downstream signaling in naïve CD8+ T cells |
| 0.0 | 1.4 | PID AJDISS 2PATHWAY | Posttranslational regulation of adherens junction stability and dissassembly |
| 0.0 | 1.2 | SIG CD40PATHWAYMAP | Genes related to CD40 signaling |
| 0.0 | 1.1 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
| 0.0 | 0.6 | PID NFKAPPAB CANONICAL PATHWAY | Canonical NF-kappaB pathway |
| 0.0 | 0.6 | PID HNF3A PATHWAY | FOXA1 transcription factor network |
| 0.0 | 0.5 | PID PTP1B PATHWAY | Signaling events mediated by PTP1B |
| 0.1 | 0.1 | PID TCR RAS PATHWAY | Ras signaling in the CD4+ TCR pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 3.0 | REACTOME CROSS PRESENTATION OF SOLUBLE EXOGENOUS ANTIGENS ENDOSOMES | Genes involved in Cross-presentation of soluble exogenous antigens (endosomes) |
| 0.1 | 2.5 | REACTOME INTERFERON ALPHA BETA SIGNALING | Genes involved in Interferon alpha/beta signaling |
| 0.2 | 1.8 | REACTOME CASPASE MEDIATED CLEAVAGE OF CYTOSKELETAL PROTEINS | Genes involved in Caspase-mediated cleavage of cytoskeletal proteins |
| 0.1 | 1.7 | REACTOME TRAF3 DEPENDENT IRF ACTIVATION PATHWAY | Genes involved in TRAF3-dependent IRF activation pathway |
| 0.3 | 1.5 | REACTOME ENDOSOMAL VACUOLAR PATHWAY | Genes involved in Endosomal/Vacuolar pathway |
| 0.1 | 1.2 | REACTOME TRAFFICKING AND PROCESSING OF ENDOSOMAL TLR | Genes involved in Trafficking and processing of endosomal TLR |
| 0.1 | 0.9 | REACTOME NEGATIVE REGULATORS OF RIG I MDA5 SIGNALING | Genes involved in Negative regulators of RIG-I/MDA5 signaling |
| 0.0 | 0.7 | REACTOME TRANSPORT OF RIBONUCLEOPROTEINS INTO THE HOST NUCLEUS | Genes involved in Transport of Ribonucleoproteins into the Host Nucleus |
| 0.0 | 0.6 | REACTOME TRANSPORT OF VITAMINS NUCLEOSIDES AND RELATED MOLECULES | Genes involved in Transport of vitamins, nucleosides, and related molecules |
| 0.0 | 0.4 | REACTOME CREATION OF C4 AND C2 ACTIVATORS | Genes involved in Creation of C4 and C2 activators |