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PRJEB1986: zebrafish developmental stages transcriptome
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Results for nfil3-4+si:dkey-172o19.2
Z-value: 1.88
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Transcription factors associated with nfil3-4+si:dkey-172o19.2
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| si:dkey-172o19.2 | dr11_v1_chr22_+_20546612_20546612 | 0.21 | 3.8e-01 | Click! |
| nfil3-4 | dr11_v1_chr22_+_20560041_20560041 | 0.12 | 6.4e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr6_-_345503 Show fit | 4.54 |
ENSDART00000168901
|
phosphodiesterase 6H, cGMP-specific, cone, gamma, paralog a |
|
| chr20_-_25533739 Show fit | 3.57 |
ENSDART00000063064
|
cytochrome P450, family 2, subfamily AD, polypeptide 6 |
|
| chr5_+_45677781 Show fit | 3.45 |
ENSDART00000163120
ENSDART00000126537 |
group-specific component (vitamin D binding protein) |
|
| chr11_-_29996344 Show fit | 3.39 |
ENSDART00000003712
ENSDART00000126110 |
angiotensin I converting enzyme 2 |
|
| chr11_-_8167799 Show fit | 3.29 |
ENSDART00000133574
ENSDART00000024046 ENSDART00000146940 |
urate oxidase |
|
| chr12_+_46960579 Show fit | 3.21 |
ENSDART00000149032
|
ornithine aminotransferase |
|
| chr9_-_48736388 Show fit | 3.07 |
ENSDART00000022074
|
dehydrogenase/reductase (SDR family) member 9 |
|
| chr17_+_27456804 Show fit | 2.81 |
ENSDART00000017756
ENSDART00000181461 ENSDART00000180178 |
cathepsin L.1 |
|
| chr25_-_29415369 Show fit | 2.80 |
ENSDART00000110774
ENSDART00000019183 |
UDP glucuronosyltransferase 5 family, polypeptide A2 UDP glucuronosyltransferase 5 family, polypeptide A1 |
|
| chr6_-_16406210 Show fit | 2.78 |
ENSDART00000012023
|
Fas apoptotic inhibitory molecule b |
Network of associatons between targets according to the STRING database.
First level regulatory network of nfil3-4+si:dkey-172o19.2
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 7.7 | GO:0017144 | drug metabolic process(GO:0017144) drug catabolic process(GO:0042737) exogenous drug catabolic process(GO:0042738) |
| 0.7 | 5.8 | GO:0072488 | ammonium transmembrane transport(GO:0072488) |
| 0.2 | 5.1 | GO:0051923 | sulfation(GO:0051923) |
| 0.1 | 4.7 | GO:0016126 | sterol biosynthetic process(GO:0016126) |
| 0.8 | 4.5 | GO:0045745 | positive regulation of G-protein coupled receptor protein signaling pathway(GO:0045745) |
| 0.2 | 4.4 | GO:0042574 | retinal metabolic process(GO:0042574) |
| 0.6 | 3.8 | GO:0006572 | tyrosine catabolic process(GO:0006572) |
| 0.8 | 3.4 | GO:2000392 | lamellipodium morphogenesis(GO:0072673) regulation of lamellipodium morphogenesis(GO:2000392) |
| 0.1 | 3.4 | GO:0051180 | vitamin transport(GO:0051180) |
| 0.1 | 3.4 | GO:0010906 | regulation of glucose metabolic process(GO:0010906) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 10.0 | GO:0005789 | endoplasmic reticulum membrane(GO:0005789) |
| 0.0 | 6.1 | GO:0016324 | apical plasma membrane(GO:0016324) |
| 0.2 | 5.4 | GO:1902710 | GABA receptor complex(GO:1902710) GABA-A receptor complex(GO:1902711) |
| 0.0 | 5.2 | GO:0005764 | lysosome(GO:0005764) |
| 0.6 | 4.5 | GO:0042622 | photoreceptor outer segment membrane(GO:0042622) |
| 0.1 | 4.0 | GO:0043679 | axon terminus(GO:0043679) neuron projection terminus(GO:0044306) |
| 0.0 | 3.8 | GO:0030176 | integral component of endoplasmic reticulum membrane(GO:0030176) |
| 0.7 | 3.4 | GO:0032433 | filopodium tip(GO:0032433) |
| 0.4 | 2.9 | GO:0030428 | cell septum(GO:0030428) |
| 0.0 | 2.5 | GO:0005777 | peroxisome(GO:0005777) microbody(GO:0042579) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 8.4 | GO:0016712 | oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced flavin or flavoprotein as one donor, and incorporation of one atom of oxygen(GO:0016712) |
| 0.2 | 5.8 | GO:0008519 | ammonium transmembrane transporter activity(GO:0008519) |
| 0.2 | 5.8 | GO:0008483 | transaminase activity(GO:0008483) |
| 0.2 | 5.4 | GO:0004890 | GABA-A receptor activity(GO:0004890) |
| 0.1 | 5.2 | GO:0004180 | carboxypeptidase activity(GO:0004180) |
| 0.3 | 4.5 | GO:0047555 | 3',5'-cyclic-GMP phosphodiesterase activity(GO:0047555) |
| 0.0 | 3.8 | GO:0008146 | sulfotransferase activity(GO:0008146) |
| 0.0 | 3.6 | GO:0000149 | SNARE binding(GO:0000149) |
| 0.1 | 3.5 | GO:0015020 | glucuronosyltransferase activity(GO:0015020) |
| 1.1 | 3.4 | GO:0005499 | vitamin D binding(GO:0005499) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 3.5 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.1 | 2.1 | PID HDAC CLASSII PATHWAY | Signaling events mediated by HDAC Class II |
| 0.1 | 2.0 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) pathway |
| 0.1 | 1.3 | PID TCR CALCIUM PATHWAY | Calcium signaling in the CD4+ TCR pathway |
| 0.1 | 1.3 | ST WNT CA2 CYCLIC GMP PATHWAY | Wnt/Ca2+/cyclic GMP signaling. |
| 0.0 | 0.8 | PID INTEGRIN2 PATHWAY | Beta2 integrin cell surface interactions |
| 0.0 | 0.8 | PID P38 MKK3 6PATHWAY | p38 MAPK signaling pathway |
| 0.1 | 0.7 | PID S1P S1P2 PATHWAY | S1P2 pathway |
| 0.0 | 0.5 | SA TRKA RECEPTOR | The TrkA receptor binds nerve growth factor to activate MAP kinase pathways and promote cell growth. |
| 0.0 | 0.3 | PID IL12 STAT4 PATHWAY | IL12 signaling mediated by STAT4 |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 3.7 | REACTOME SPHINGOLIPID DE NOVO BIOSYNTHESIS | Genes involved in Sphingolipid de novo biosynthesis |
| 0.3 | 3.2 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.1 | 3.0 | REACTOME METABOLISM OF STEROID HORMONES AND VITAMINS A AND D | Genes involved in Metabolism of steroid hormones and vitamins A and D |
| 0.0 | 3.0 | REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES | Genes involved in Metabolism of amino acids and derivatives |
| 0.1 | 2.6 | REACTOME CHOLESTEROL BIOSYNTHESIS | Genes involved in Cholesterol biosynthesis |
| 0.1 | 2.5 | REACTOME LIGAND GATED ION CHANNEL TRANSPORT | Genes involved in Ligand-gated ion channel transport |
| 0.1 | 2.4 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |
| 0.0 | 2.3 | REACTOME RESPIRATORY ELECTRON TRANSPORT ATP SYNTHESIS BY CHEMIOSMOTIC COUPLING AND HEAT PRODUCTION BY UNCOUPLING PROTEINS | Genes involved in Respiratory electron transport, ATP synthesis by chemiosmotic coupling, and heat production by uncoupling proteins. |
| 0.2 | 1.9 | REACTOME HYALURONAN UPTAKE AND DEGRADATION | Genes involved in Hyaluronan uptake and degradation |
| 0.0 | 1.7 | REACTOME 3 UTR MEDIATED TRANSLATIONAL REGULATION | Genes involved in 3' -UTR-mediated translational regulation |