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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for hmx2_hmx3a
Z-value: 1.00
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Transcription factors associated with hmx2_hmx3a
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| hmx3a | dr11_v1_chr17_-_21793113_21793113 | -0.23 | 3.6e-01 | Click! |
| hmx2 | dr11_v1_chr17_-_21784152_21784152 | 0.13 | 6.0e-01 | Click! |
Network of associatons between targets according to the STRING database.
First level regulatory network of hmx2_hmx3a
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 3.7 | GO:0090630 | activation of GTPase activity(GO:0090630) |
| 0.0 | 3.2 | GO:0043087 | regulation of GTPase activity(GO:0043087) |
| 0.1 | 2.0 | GO:0055008 | cardiac muscle tissue morphogenesis(GO:0055008) |
| 0.4 | 1.8 | GO:0046490 | isopentenyl diphosphate biosynthetic process(GO:0009240) isopentenyl diphosphate metabolic process(GO:0046490) |
| 0.4 | 1.8 | GO:0000012 | single strand break repair(GO:0000012) |
| 0.0 | 1.7 | GO:0007528 | neuromuscular junction development(GO:0007528) |
| 0.2 | 1.5 | GO:0031113 | regulation of microtubule polymerization(GO:0031113) |
| 0.3 | 1.4 | GO:0035279 | mRNA cleavage involved in gene silencing by miRNA(GO:0035279) mRNA cleavage involved in gene silencing(GO:0098795) |
| 0.1 | 1.3 | GO:0071712 | ER-associated misfolded protein catabolic process(GO:0071712) |
| 0.2 | 1.2 | GO:0021534 | cell proliferation in hindbrain(GO:0021534) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 2.3 | GO:0031258 | lamellipodium membrane(GO:0031258) |
| 0.0 | 1.9 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.1 | 1.5 | GO:0036449 | microtubule minus-end(GO:0036449) |
| 0.0 | 1.5 | GO:0005788 | endoplasmic reticulum lumen(GO:0005788) |
| 0.0 | 1.5 | GO:0048786 | presynaptic active zone(GO:0048786) |
| 0.0 | 1.5 | GO:0014069 | postsynaptic density(GO:0014069) |
| 0.2 | 1.4 | GO:0005845 | mRNA cap binding complex(GO:0005845) |
| 0.0 | 1.4 | GO:0005814 | centriole(GO:0005814) |
| 0.0 | 1.3 | GO:0031463 | Cul3-RING ubiquitin ligase complex(GO:0031463) |
| 0.1 | 1.1 | GO:0015030 | Cajal body(GO:0015030) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.0 | GO:0005096 | GTPase activator activity(GO:0005096) |
| 0.0 | 2.5 | GO:0019208 | phosphatase regulator activity(GO:0019208) |
| 0.0 | 2.2 | GO:0005178 | integrin binding(GO:0005178) |
| 0.3 | 1.9 | GO:0016863 | intramolecular oxidoreductase activity, transposing C=C bonds(GO:0016863) |
| 0.1 | 1.9 | GO:0003684 | damaged DNA binding(GO:0003684) |
| 0.1 | 1.5 | GO:0051011 | microtubule minus-end binding(GO:0051011) |
| 0.4 | 1.4 | GO:0070883 | pre-miRNA binding(GO:0070883) |
| 0.0 | 1.4 | GO:0004198 | calcium-dependent cysteine-type endopeptidase activity(GO:0004198) |
| 0.0 | 1.4 | GO:0019003 | GDP binding(GO:0019003) |
| 0.0 | 1.3 | GO:0061631 | ubiquitin conjugating enzyme activity(GO:0061631) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 1.9 | PID FOXM1 PATHWAY | FOXM1 transcription factor network |
| 0.0 | 1.5 | PID AURORA A PATHWAY | Aurora A signaling |
| 0.0 | 1.1 | PID RAS PATHWAY | Regulation of Ras family activation |
| 0.0 | 0.9 | PID AURORA B PATHWAY | Aurora B signaling |
| 0.1 | 0.8 | SA MMP CYTOKINE CONNECTION | Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix. |
| 0.0 | 0.7 | PID ECADHERIN NASCENT AJ PATHWAY | E-cadherin signaling in the nascent adherens junction |
| 0.0 | 0.6 | ST WNT CA2 CYCLIC GMP PATHWAY | Wnt/Ca2+/cyclic GMP signaling. |
| 0.0 | 0.6 | PID MYC REPRESS PATHWAY | Validated targets of C-MYC transcriptional repression |
| 0.0 | 0.5 | SA PTEN PATHWAY | PTEN is a tumor suppressor that dephosphorylates the lipid messenger phosphatidylinositol triphosphate. |
| 0.0 | 0.5 | PID SMAD2 3PATHWAY | Regulation of cytoplasmic and nuclear SMAD2/3 signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 2.3 | REACTOME CELL EXTRACELLULAR MATRIX INTERACTIONS | Genes involved in Cell-extracellular matrix interactions |
| 0.1 | 1.9 | REACTOME RESOLUTION OF AP SITES VIA THE SINGLE NUCLEOTIDE REPLACEMENT PATHWAY | Genes involved in Resolution of AP sites via the single-nucleotide replacement pathway |
| 0.1 | 1.8 | REACTOME CHOLESTEROL BIOSYNTHESIS | Genes involved in Cholesterol biosynthesis |
| 0.1 | 1.1 | REACTOME SEMA3A PLEXIN REPULSION SIGNALING BY INHIBITING INTEGRIN ADHESION | Genes involved in SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion |
| 0.1 | 1.0 | REACTOME RNA POL III TRANSCRIPTION TERMINATION | Genes involved in RNA Polymerase III Transcription Termination |
| 0.1 | 1.0 | REACTOME N GLYCAN TRIMMING IN THE ER AND CALNEXIN CALRETICULIN CYCLE | Genes involved in N-glycan trimming in the ER and Calnexin/Calreticulin cycle |
| 0.0 | 1.0 | REACTOME FACTORS INVOLVED IN MEGAKARYOCYTE DEVELOPMENT AND PLATELET PRODUCTION | Genes involved in Factors involved in megakaryocyte development and platelet production |
| 0.0 | 0.9 | REACTOME MITOTIC PROMETAPHASE | Genes involved in Mitotic Prometaphase |
| 0.0 | 0.8 | REACTOME FORMATION OF INCISION COMPLEX IN GG NER | Genes involved in Formation of incision complex in GG-NER |
| 0.0 | 0.8 | REACTOME IL1 SIGNALING | Genes involved in Interleukin-1 signaling |