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PRJNA195909:zebrafish embryo and larva development
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Results for sox19a+sox2
Z-value: 2.19
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Transcription factors associated with sox19a+sox2
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| sox2 | dr11_v1_chr22_-_37349967_37349967 | 0.71 | 3.1e-02 | Click! |
| sox19a | dr11_v1_chr5_-_24201437_24201437 | 0.49 | 1.8e-01 | Click! |
Network of associatons between targets according to the STRING database.
First level regulatory network of sox19a+sox2
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 25.9 | GO:0002088 | lens development in camera-type eye(GO:0002088) |
| 0.1 | 19.8 | GO:0007156 | homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156) |
| 0.4 | 8.8 | GO:0048936 | peripheral nervous system neuron axonogenesis(GO:0048936) |
| 0.2 | 5.9 | GO:0006942 | regulation of striated muscle contraction(GO:0006942) |
| 0.1 | 5.2 | GO:0003009 | skeletal muscle contraction(GO:0003009) |
| 0.0 | 4.8 | GO:0007160 | cell-matrix adhesion(GO:0007160) |
| 1.1 | 4.3 | GO:0016123 | tetraterpenoid metabolic process(GO:0016108) tetraterpenoid biosynthetic process(GO:0016109) carotenoid metabolic process(GO:0016116) carotenoid biosynthetic process(GO:0016117) xanthophyll metabolic process(GO:0016122) xanthophyll biosynthetic process(GO:0016123) zeaxanthin metabolic process(GO:1901825) zeaxanthin biosynthetic process(GO:1901827) |
| 0.0 | 4.1 | GO:0048704 | embryonic skeletal system morphogenesis(GO:0048704) |
| 0.1 | 3.7 | GO:0045214 | sarcomere organization(GO:0045214) |
| 0.1 | 3.1 | GO:0045103 | intermediate filament-based process(GO:0045103) intermediate filament cytoskeleton organization(GO:0045104) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 17.4 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
| 0.0 | 14.2 | GO:0031012 | extracellular matrix(GO:0031012) |
| 0.3 | 11.1 | GO:0005861 | troponin complex(GO:0005861) |
| 0.1 | 6.5 | GO:0005882 | intermediate filament(GO:0005882) |
| 0.1 | 4.9 | GO:0005581 | collagen trimer(GO:0005581) |
| 0.0 | 4.6 | GO:0043005 | neuron projection(GO:0043005) |
| 0.1 | 4.0 | GO:0043204 | perikaryon(GO:0043204) |
| 0.0 | 3.6 | GO:0016459 | myosin complex(GO:0016459) |
| 0.0 | 2.6 | GO:0030424 | axon(GO:0030424) |
| 0.1 | 2.3 | GO:0048770 | melanosome(GO:0042470) pigment granule(GO:0048770) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 27.5 | GO:0005509 | calcium ion binding(GO:0005509) |
| 0.3 | 25.3 | GO:0005212 | structural constituent of eye lens(GO:0005212) |
| 0.0 | 25.2 | GO:0000987 | core promoter proximal region sequence-specific DNA binding(GO:0000987) core promoter proximal region DNA binding(GO:0001159) |
| 0.0 | 10.9 | GO:0051015 | actin filament binding(GO:0051015) |
| 0.0 | 9.4 | GO:0005198 | structural molecule activity(GO:0005198) |
| 0.6 | 6.2 | GO:0030172 | troponin C binding(GO:0030172) troponin I binding(GO:0031013) |
| 0.1 | 5.1 | GO:0005546 | phosphatidylinositol-4,5-bisphosphate binding(GO:0005546) |
| 1.1 | 4.3 | GO:0052885 | retinol isomerase activity(GO:0050251) all-trans-retinyl-ester hydrolase, 11-cis retinol forming activity(GO:0052885) |
| 0.1 | 4.3 | GO:0004198 | calcium-dependent cysteine-type endopeptidase activity(GO:0004198) |
| 0.0 | 4.2 | GO:0004222 | metalloendopeptidase activity(GO:0004222) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 4.7 | NABA PROTEOGLYCANS | Genes encoding proteoglycans |
| 0.0 | 2.4 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.1 | 2.1 | ST DIFFERENTIATION PATHWAY IN PC12 CELLS | Differentiation Pathway in PC12 Cells; this is a specific case of PAC1 Receptor Pathway. |
| 0.1 | 2.0 | PID FRA PATHWAY | Validated transcriptional targets of AP1 family members Fra1 and Fra2 |
| 0.1 | 1.7 | PID HNF3A PATHWAY | FOXA1 transcription factor network |
| 0.0 | 1.6 | NABA ECM AFFILIATED | Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins |
| 0.1 | 1.0 | PID S1P S1P3 PATHWAY | S1P3 pathway |
| 0.1 | 0.9 | PID P38 MK2 PATHWAY | p38 signaling mediated by MAPKAP kinases |
| 0.0 | 0.8 | PID ALK1 PATHWAY | ALK1 signaling events |
| 0.0 | 0.6 | PID RHODOPSIN PATHWAY | Visual signal transduction: Rods |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 2.9 | REACTOME POST CHAPERONIN TUBULIN FOLDING PATHWAY | Genes involved in Post-chaperonin tubulin folding pathway |
| 0.0 | 2.4 | REACTOME FORMATION OF THE TERNARY COMPLEX AND SUBSEQUENTLY THE 43S COMPLEX | Genes involved in Formation of the ternary complex, and subsequently, the 43S complex |
| 0.4 | 1.8 | REACTOME APOPTOSIS INDUCED DNA FRAGMENTATION | Genes involved in Apoptosis induced DNA fragmentation |
| 0.0 | 1.4 | REACTOME RESPIRATORY ELECTRON TRANSPORT | Genes involved in Respiratory electron transport |
| 0.0 | 1.2 | REACTOME PHASE II CONJUGATION | Genes involved in Phase II conjugation |
| 0.1 | 1.1 | REACTOME KERATAN SULFATE DEGRADATION | Genes involved in Keratan sulfate degradation |
| 0.1 | 1.1 | REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS | Genes involved in Regulation of gene expression in beta cells |
| 0.1 | 1.1 | REACTOME SYNTHESIS AND INTERCONVERSION OF NUCLEOTIDE DI AND TRIPHOSPHATES | Genes involved in Synthesis and interconversion of nucleotide di- and triphosphates |
| 0.1 | 1.0 | REACTOME FGFR4 LIGAND BINDING AND ACTIVATION | Genes involved in FGFR4 ligand binding and activation |
| 0.1 | 1.0 | REACTOME NA CL DEPENDENT NEUROTRANSMITTER TRANSPORTERS | Genes involved in Na+/Cl- dependent neurotransmitter transporters |