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PRJDB7713: Age associated transcriptome analysis in 5 tissues of zebrafish
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Results for nr1d2a
Z-value: 1.23
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Transcription factors associated with nr1d2a
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| nr1d2a | dr11_v1_chr16_+_50100420_50100420 | 0.24 | 1.9e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr5_+_70155935 Show fit | 28.92 |
ENSDART00000165570
|
regulator of G protein signaling 3a |
|
| chr17_-_6738538 Show fit | 26.20 |
ENSDART00000157125
|
visinin-like 1b |
|
| chr18_-_39473055 Show fit | 20.69 |
ENSDART00000122930
|
secretogranin III |
|
| chr7_+_40228422 Show fit | 20.55 |
ENSDART00000052222
|
protein tyrosine phosphatase, receptor type, N polypeptide 2 |
|
| chr17_-_15528597 Show fit | 19.13 |
ENSDART00000150232
|
FYN proto-oncogene, Src family tyrosine kinase a |
|
| chr23_+_19564392 Show fit | 16.82 |
ENSDART00000144746
|
ATPase H+ transporting accessory protein 1 like b |
|
| chr6_+_57541776 Show fit | 16.04 |
ENSDART00000157330
|
N-terminal EF-hand calcium binding protein 3 |
|
| chr25_+_6306885 Show fit | 15.95 |
ENSDART00000142705
ENSDART00000067510 |
cellular retinoic acid binding protein 1a |
|
| chr2_-_16380283 Show fit | 15.40 |
ENSDART00000149992
|
si:dkey-231j24.3 |
|
| chr3_+_35298078 Show fit | 14.61 |
ENSDART00000110126
|
calcium channel, voltage-dependent, gamma subunit 3b |
Network of associatons between targets according to the STRING database.
First level regulatory network of nr1d2a
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 5.8 | 28.9 | GO:0008591 | regulation of Wnt signaling pathway, calcium modulating pathway(GO:0008591) negative regulation of non-canonical Wnt signaling pathway(GO:2000051) |
| 0.8 | 26.5 | GO:0009648 | photoperiodism(GO:0009648) |
| 0.1 | 19.3 | GO:0006470 | protein dephosphorylation(GO:0006470) |
| 2.4 | 19.1 | GO:0034334 | adherens junction maintenance(GO:0034334) |
| 0.0 | 17.7 | GO:0033365 | protein localization to organelle(GO:0033365) |
| 0.3 | 16.8 | GO:0030641 | regulation of cellular pH(GO:0030641) |
| 3.2 | 16.0 | GO:0016115 | diterpenoid catabolic process(GO:0016103) terpenoid catabolic process(GO:0016115) retinoic acid catabolic process(GO:0034653) |
| 2.3 | 16.0 | GO:0042984 | amyloid precursor protein biosynthetic process(GO:0042983) regulation of amyloid precursor protein biosynthetic process(GO:0042984) |
| 0.9 | 14.6 | GO:0098943 | neurotransmitter receptor transport, postsynaptic endosome to lysosome(GO:0098943) |
| 4.5 | 13.6 | GO:0021530 | spinal cord oligodendrocyte cell fate specification(GO:0021530) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 79.1 | GO:0005634 | nucleus(GO:0005634) |
| 0.9 | 20.7 | GO:0030667 | secretory granule membrane(GO:0030667) |
| 0.3 | 20.6 | GO:0030141 | secretory granule(GO:0030141) |
| 0.1 | 19.1 | GO:0031234 | extrinsic component of cytoplasmic side of plasma membrane(GO:0031234) |
| 1.3 | 18.1 | GO:0034751 | aryl hydrocarbon receptor complex(GO:0034751) |
| 2.8 | 16.8 | GO:0033181 | plasma membrane proton-transporting V-type ATPase complex(GO:0033181) |
| 0.2 | 16.0 | GO:0031985 | Golgi cisterna(GO:0031985) |
| 0.0 | 15.2 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
| 0.4 | 14.6 | GO:0032281 | AMPA glutamate receptor complex(GO:0032281) |
| 0.0 | 13.3 | GO:0030425 | dendrite(GO:0030425) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 40.3 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
| 0.0 | 33.0 | GO:0005509 | calcium ion binding(GO:0005509) |
| 0.1 | 22.9 | GO:0004725 | protein tyrosine phosphatase activity(GO:0004725) |
| 0.1 | 19.6 | GO:0005085 | guanyl-nucleotide exchange factor activity(GO:0005085) |
| 0.2 | 19.1 | GO:0004715 | non-membrane spanning protein tyrosine kinase activity(GO:0004715) |
| 0.0 | 18.1 | GO:0046983 | protein dimerization activity(GO:0046983) |
| 2.0 | 16.0 | GO:0001972 | retinoic acid binding(GO:0001972) |
| 0.2 | 14.6 | GO:0005245 | voltage-gated calcium channel activity(GO:0005245) |
| 0.0 | 14.6 | GO:0004674 | protein serine/threonine kinase activity(GO:0004674) |
| 1.3 | 12.1 | GO:0004865 | protein serine/threonine phosphatase inhibitor activity(GO:0004865) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 13.0 | NABA PROTEOGLYCANS | Genes encoding proteoglycans |
| 0.1 | 8.9 | WNT SIGNALING | Genes related to Wnt-mediated signal transduction |
| 0.4 | 8.1 | PID WNT SIGNALING PATHWAY | Wnt signaling network |
| 0.5 | 7.3 | PID CIRCADIAN PATHWAY | Circadian rhythm pathway |
| 0.0 | 2.5 | PID ERA GENOMIC PATHWAY | Validated nuclear estrogen receptor alpha network |
| 0.0 | 1.9 | PID IL12 2PATHWAY | IL12-mediated signaling events |
| 0.0 | 1.9 | PID TELOMERASE PATHWAY | Regulation of Telomerase |
| 0.0 | 1.4 | PID NCADHERIN PATHWAY | N-cadherin signaling events |
| 0.1 | 1.3 | PID ERB GENOMIC PATHWAY | Validated nuclear estrogen receptor beta network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 20.7 | REACTOME RESPONSE TO ELEVATED PLATELET CYTOSOLIC CA2 | Genes involved in Response to elevated platelet cytosolic Ca2+ |
| 0.1 | 7.6 | REACTOME MRNA SPLICING | Genes involved in mRNA Splicing |
| 0.2 | 7.3 | REACTOME CIRCADIAN CLOCK | Genes involved in Circadian Clock |
| 0.0 | 2.0 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |
| 0.1 | 1.8 | REACTOME EFFECTS OF PIP2 HYDROLYSIS | Genes involved in Effects of PIP2 hydrolysis |
| 0.0 | 1.5 | REACTOME PEPTIDE LIGAND BINDING RECEPTORS | Genes involved in Peptide ligand-binding receptors |
| 0.1 | 1.1 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.0 | 1.0 | REACTOME SPHINGOLIPID DE NOVO BIOSYNTHESIS | Genes involved in Sphingolipid de novo biosynthesis |
| 0.0 | 0.3 | REACTOME REGULATION OF KIT SIGNALING | Genes involved in Regulation of KIT signaling |