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PRJNA207719: Tissue specific transcriptome profiling
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Results for clocka+clockb+npas2
Z-value: 2.09
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Transcription factors associated with clocka+clockb+npas2
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| npas2 | dr11_v1_chr5_+_22791686_22791686 | -0.97 | 7.5e-03 | Click! |
| clocka | dr11_v1_chr20_+_22130284_22130284 | -0.81 | 9.9e-02 | Click! |
| clockb | dr11_v1_chr1_+_19433004_19433004 | -0.69 | 2.0e-01 | Click! |
Network of associatons between targets according to the STRING database.
First level regulatory network of clocka+clockb+npas2
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 9.2 | GO:0042254 | ribosome biogenesis(GO:0042254) |
| 0.0 | 4.1 | GO:0043043 | peptide biosynthetic process(GO:0043043) |
| 0.4 | 2.3 | GO:0003272 | endocardial cushion formation(GO:0003272) |
| 0.1 | 2.1 | GO:0000470 | maturation of LSU-rRNA(GO:0000470) |
| 0.0 | 1.8 | GO:0002181 | cytoplasmic translation(GO:0002181) |
| 0.0 | 1.8 | GO:0006414 | translational elongation(GO:0006414) |
| 0.0 | 1.6 | GO:0072310 | glomerular visceral epithelial cell development(GO:0072015) glomerular epithelial cell development(GO:0072310) |
| 0.2 | 1.5 | GO:0006177 | GMP biosynthetic process(GO:0006177) GMP metabolic process(GO:0046037) |
| 0.0 | 1.5 | GO:0030488 | tRNA methylation(GO:0030488) |
| 0.5 | 1.4 | GO:0031120 | snRNA pseudouridine synthesis(GO:0031120) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 10.7 | GO:0005730 | nucleolus(GO:0005730) |
| 0.1 | 4.8 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.1 | 2.4 | GO:0030686 | 90S preribosome(GO:0030686) |
| 0.1 | 2.3 | GO:0005869 | dynactin complex(GO:0005869) |
| 0.3 | 1.4 | GO:0072588 | box H/ACA snoRNP complex(GO:0031429) box H/ACA RNP complex(GO:0072588) |
| 0.1 | 1.4 | GO:0005666 | DNA-directed RNA polymerase III complex(GO:0005666) |
| 0.0 | 1.4 | GO:0005643 | nuclear pore(GO:0005643) |
| 0.0 | 1.2 | GO:0030864 | cortical actin cytoskeleton(GO:0030864) |
| 0.4 | 1.1 | GO:0042709 | succinate-CoA ligase complex(GO:0042709) |
| 0.2 | 1.0 | GO:0031515 | tRNA (m1A) methyltransferase complex(GO:0031515) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 3.8 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.1 | 3.2 | GO:0003746 | translation elongation factor activity(GO:0003746) |
| 0.0 | 2.5 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.0 | 2.3 | GO:0004222 | metalloendopeptidase activity(GO:0004222) |
| 0.0 | 2.1 | GO:0004867 | serine-type endopeptidase inhibitor activity(GO:0004867) |
| 0.0 | 1.9 | GO:0019843 | rRNA binding(GO:0019843) |
| 0.3 | 1.8 | GO:0016426 | tRNA (adenine) methyltransferase activity(GO:0016426) |
| 0.0 | 1.7 | GO:0016831 | carboxy-lyase activity(GO:0016831) |
| 0.0 | 1.4 | GO:0003730 | mRNA 3'-UTR binding(GO:0003730) |
| 0.4 | 1.3 | GO:0071885 | N-terminal protein N-methyltransferase activity(GO:0071885) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 1.1 | PID TELOMERASE PATHWAY | Regulation of Telomerase |
| 0.0 | 0.9 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.0 | 0.7 | PID RXR VDR PATHWAY | RXR and RAR heterodimerization with other nuclear receptor |
| 0.0 | 0.7 | PID HNF3A PATHWAY | FOXA1 transcription factor network |
| 0.0 | 0.7 | PID IL4 2PATHWAY | IL4-mediated signaling events |
| 0.1 | 0.6 | PID S1P S1P4 PATHWAY | S1P4 pathway |
| 0.0 | 0.6 | PID VEGFR1 PATHWAY | VEGFR1 specific signals |
| 0.0 | 0.6 | PID FRA PATHWAY | Validated transcriptional targets of AP1 family members Fra1 and Fra2 |
| 0.0 | 0.6 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
| 0.0 | 0.5 | 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 |
|---|---|---|---|
| 0.1 | 6.4 | REACTOME 3 UTR MEDIATED TRANSLATIONAL REGULATION | Genes involved in 3' -UTR-mediated translational regulation |
| 0.2 | 2.3 | REACTOME PURINE RIBONUCLEOSIDE MONOPHOSPHATE BIOSYNTHESIS | Genes involved in Purine ribonucleoside monophosphate biosynthesis |
| 0.1 | 1.7 | REACTOME PTM GAMMA CARBOXYLATION HYPUSINE FORMATION AND ARYLSULFATASE ACTIVATION | Genes involved in PTM: gamma carboxylation, hypusine formation and arylsulfatase activation |
| 0.0 | 1.3 | REACTOME EXTENSION OF TELOMERES | Genes involved in Extension of Telomeres |
| 0.1 | 1.1 | REACTOME CITRIC ACID CYCLE TCA CYCLE | Genes involved in Citric acid cycle (TCA cycle) |
| 0.0 | 0.9 | REACTOME SRP DEPENDENT COTRANSLATIONAL PROTEIN TARGETING TO MEMBRANE | Genes involved in SRP-dependent cotranslational protein targeting to membrane |
| 0.0 | 0.8 | REACTOME E2F ENABLED INHIBITION OF PRE REPLICATION COMPLEX FORMATION | Genes involved in E2F-enabled inhibition of pre-replication complex formation |
| 0.0 | 0.8 | REACTOME KINESINS | Genes involved in Kinesins |
| 0.0 | 0.7 | REACTOME SIGNAL ATTENUATION | Genes involved in Signal attenuation |
| 0.0 | 0.7 | REACTOME ACTIVATED AMPK STIMULATES FATTY ACID OXIDATION IN MUSCLE | Genes involved in Activated AMPK stimulates fatty-acid oxidation in muscle |