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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for cdx1a+cdx1b
Z-value: 0.87
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Transcription factors associated with cdx1a+cdx1b
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| cdx1a | dr11_v1_chr14_+_3287740_3287740 | 0.37 | 1.3e-01 | Click! |
| cdx1b | dr11_v1_chr21_-_43992027_43992027 | 0.04 | 8.7e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr1_-_53468160 Show fit | 2.04 |
ENSDART00000143349
|
zgc:66455 |
|
| chr3_-_53091946 Show fit | 2.04 |
ENSDART00000187297
|
lysophosphatidic acid receptor 2a |
|
| chr1_-_13989643 Show fit | 1.88 |
ENSDART00000191046
|
E74-like factor 2b (ets domain transcription factor) |
|
| chr15_-_28596507 Show fit | 1.48 |
ENSDART00000156800
|
si:ch211-225b7.5 |
|
| chr3_+_49074008 Show fit | 1.48 |
ENSDART00000168864
|
zgc:112146 |
|
| chr20_+_52546186 Show fit | 1.44 |
ENSDART00000110777
ENSDART00000153377 ENSDART00000153013 ENSDART00000042704 |
eukaryotic translation elongation factor 1 delta b (guanine nucleotide exchange protein) |
|
| chr24_-_9997948 Show fit | 1.26 |
ENSDART00000136274
|
si:ch211-146l10.7 |
|
| chr10_-_21545091 Show fit | 1.15 |
ENSDART00000029122
ENSDART00000132207 |
zgc:165539 |
|
| chr12_+_3871452 Show fit | 1.11 |
ENSDART00000066546
|
NIF3 NGG1 interacting factor 3-like 1 (S. cerevisiae) |
|
| chr9_-_710896 Show fit | 1.11 |
ENSDART00000180478
|
NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 3 |
Network of associatons between targets according to the STRING database.
First level regulatory network of cdx1a+cdx1b
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 2.0 | GO:0045647 | negative regulation of erythrocyte differentiation(GO:0045647) |
| 0.1 | 2.0 | GO:0048251 | elastic fiber assembly(GO:0048251) |
| 0.6 | 1.8 | GO:0043654 | recognition of apoptotic cell(GO:0043654) |
| 0.0 | 1.4 | GO:0006414 | translational elongation(GO:0006414) |
| 0.1 | 1.1 | GO:0018206 | peptidyl-methionine modification(GO:0018206) |
| 0.1 | 1.1 | GO:0032981 | NADH dehydrogenase complex assembly(GO:0010257) mitochondrial respiratory chain complex I assembly(GO:0032981) mitochondrial respiratory chain complex I biogenesis(GO:0097031) |
| 0.0 | 1.1 | GO:0010508 | positive regulation of autophagy(GO:0010508) |
| 0.1 | 0.9 | GO:0035627 | ceramide transport(GO:0035627) |
| 0.1 | 0.9 | GO:0006348 | chromatin silencing at telomere(GO:0006348) |
| 0.1 | 0.9 | GO:0045947 | negative regulation of translational initiation(GO:0045947) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 1.8 | GO:0005901 | caveola(GO:0005901) plasma membrane raft(GO:0044853) |
| 0.2 | 1.4 | GO:0005853 | eukaryotic translation elongation factor 1 complex(GO:0005853) |
| 0.0 | 1.1 | GO:0030964 | mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271) |
| 0.0 | 0.9 | GO:0022625 | cytosolic large ribosomal subunit(GO:0022625) |
| 0.0 | 0.8 | GO:0000276 | mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)(GO:0000276) |
| 0.1 | 0.7 | GO:0072487 | MSL complex(GO:0072487) |
| 0.0 | 0.7 | GO:0032039 | integrator complex(GO:0032039) |
| 0.0 | 0.7 | GO:0016605 | PML body(GO:0016605) |
| 0.0 | 0.7 | GO:0031903 | peroxisomal membrane(GO:0005778) microbody membrane(GO:0031903) |
| 0.0 | 0.7 | GO:0000315 | organellar large ribosomal subunit(GO:0000315) mitochondrial large ribosomal subunit(GO:0005762) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.0 | GO:0070915 | lysophosphatidic acid receptor activity(GO:0070915) |
| 0.4 | 1.8 | GO:0030169 | low-density lipoprotein particle binding(GO:0030169) |
| 0.0 | 1.4 | GO:0003746 | translation elongation factor activity(GO:0003746) |
| 0.0 | 1.3 | GO:0016811 | hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides(GO:0016811) |
| 0.1 | 1.0 | GO:0000900 | translation repressor activity, nucleic acid binding(GO:0000900) |
| 0.0 | 1.0 | GO:0061631 | ubiquitin conjugating enzyme activity(GO:0061631) |
| 0.0 | 1.0 | GO:0005200 | structural constituent of cytoskeleton(GO:0005200) |
| 0.2 | 0.9 | GO:1902387 | ceramide transporter activity(GO:0035620) ceramide 1-phosphate binding(GO:1902387) ceramide 1-phosphate transporter activity(GO:1902388) |
| 0.2 | 0.9 | GO:0070180 | large ribosomal subunit rRNA binding(GO:0070180) |
| 0.1 | 0.9 | GO:0010485 | H4 histone acetyltransferase activity(GO:0010485) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 0.7 | PID TNF PATHWAY | TNF receptor signaling pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.8 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.0 | 1.1 | REACTOME RESPIRATORY ELECTRON TRANSPORT | Genes involved in Respiratory electron transport |
| 0.0 | 0.9 | REACTOME G1 PHASE | Genes involved in G1 Phase |
| 0.0 | 0.8 | REACTOME TRAF6 MEDIATED IRF7 ACTIVATION | Genes involved in TRAF6 mediated IRF7 activation |
| 0.0 | 0.7 | REACTOME PEROXISOMAL LIPID METABOLISM | Genes involved in Peroxisomal lipid metabolism |
| 0.0 | 0.6 | REACTOME FORMATION OF TUBULIN FOLDING INTERMEDIATES BY CCT TRIC | Genes involved in Formation of tubulin folding intermediates by CCT/TriC |
| 0.0 | 0.6 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.0 | 0.5 | REACTOME POST CHAPERONIN TUBULIN FOLDING PATHWAY | Genes involved in Post-chaperonin tubulin folding pathway |
| 0.0 | 0.5 | REACTOME KERATAN SULFATE BIOSYNTHESIS | Genes involved in Keratan sulfate biosynthesis |
| 0.0 | 0.4 | REACTOME MRNA SPLICING MINOR PATHWAY | Genes involved in mRNA Splicing - Minor Pathway |