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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for tbxta+tbxtb
Z-value: 1.07
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Transcription factors associated with tbxta+tbxtb
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| tbxtb | dr11_v1_chr13_+_4440869_4440869 | -0.66 | 3.1e-03 | Click! |
| tbxta | dr11_v1_chr19_-_14191592_14191592 | 0.56 | 1.5e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr5_-_68333081 Show fit | 3.62 |
ENSDART00000168786
|
linker histone H1M |
|
| chr9_-_30385059 Show fit | 3.23 |
ENSDART00000060134
|
phosphatidylinositol glycan anchor biosynthesis, class A |
|
| chr13_-_36844945 Show fit | 3.21 |
ENSDART00000129562
ENSDART00000150899 |
ninein (GSK3B interacting protein) |
|
| chr11_-_25257045 Show fit | 3.06 |
ENSDART00000130477
|
snail family zinc finger 1a |
|
| chr11_-_25257595 Show fit | 2.96 |
ENSDART00000123567
|
snail family zinc finger 1a |
|
| chr7_+_51795667 Show fit | 2.77 |
ENSDART00000174201
ENSDART00000073839 |
solute carrier family 38, member 7 |
|
| chr2_+_15069011 Show fit | 2.74 |
ENSDART00000145893
|
calponin 3, acidic b |
|
| chr2_+_9821757 Show fit | 2.35 |
ENSDART00000018408
ENSDART00000141227 ENSDART00000144681 ENSDART00000148227 |
annexin A13, like |
|
| chr12_-_4301234 Show fit | 2.32 |
ENSDART00000152377
ENSDART00000152521 |
carbonic anhydrase XVb |
|
| chr18_+_16053455 Show fit | 2.24 |
ENSDART00000189163
ENSDART00000188269 |
|
Network of associatons between targets according to the STRING database.
First level regulatory network of tbxta+tbxtb
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 6.0 | GO:0008078 | mesodermal cell migration(GO:0008078) |
| 0.2 | 4.8 | GO:0006506 | GPI anchor biosynthetic process(GO:0006506) |
| 0.2 | 3.6 | GO:0016584 | nucleosome positioning(GO:0016584) |
| 0.1 | 3.5 | GO:0007062 | sister chromatid cohesion(GO:0007062) |
| 0.6 | 3.2 | GO:0034454 | microtubule anchoring at centrosome(GO:0034454) |
| 0.0 | 2.8 | GO:0003333 | amino acid transmembrane transport(GO:0003333) |
| 0.0 | 2.6 | GO:0031032 | actomyosin structure organization(GO:0031032) |
| 0.1 | 2.3 | GO:0008354 | germ cell migration(GO:0008354) |
| 0.1 | 2.0 | GO:0018231 | peptidyl-L-cysteine S-palmitoylation(GO:0018230) peptidyl-S-diacylglycerol-L-cysteine biosynthetic process from peptidyl-cysteine(GO:0018231) |
| 0.1 | 1.9 | GO:0070593 | dendrite self-avoidance(GO:0070593) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 4.8 | GO:0000506 | glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex(GO:0000506) |
| 0.0 | 4.0 | GO:0000786 | nucleosome(GO:0000786) |
| 0.1 | 3.5 | GO:0008278 | cohesin complex(GO:0008278) |
| 0.3 | 3.2 | GO:0097431 | mitotic spindle pole(GO:0097431) |
| 0.3 | 1.7 | GO:0031415 | NatA complex(GO:0031415) |
| 0.1 | 1.7 | GO:0034992 | microtubule organizing center attachment site(GO:0034992) LINC complex(GO:0034993) |
| 0.0 | 1.7 | GO:0005942 | phosphatidylinositol 3-kinase complex(GO:0005942) |
| 0.0 | 1.6 | GO:0031228 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
| 0.0 | 1.6 | GO:0005884 | actin filament(GO:0005884) |
| 0.2 | 1.4 | GO:0001650 | fibrillar center(GO:0001650) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.5 | 6.0 | GO:0051059 | NF-kappaB binding(GO:0051059) |
| 0.7 | 4.8 | GO:0017176 | phosphatidylinositol N-acetylglucosaminyltransferase activity(GO:0017176) |
| 0.2 | 3.6 | GO:0031492 | nucleosomal DNA binding(GO:0031492) |
| 0.0 | 3.6 | GO:0005085 | guanyl-nucleotide exchange factor activity(GO:0005085) |
| 0.9 | 2.8 | GO:0000099 | sulfur amino acid transmembrane transporter activity(GO:0000099) |
| 0.4 | 2.8 | GO:0008118 | N-acetyllactosaminide alpha-2,3-sialyltransferase activity(GO:0008118) |
| 0.5 | 2.5 | GO:0070644 | vitamin D response element binding(GO:0070644) |
| 0.0 | 2.5 | GO:0005516 | calmodulin binding(GO:0005516) |
| 0.0 | 2.4 | GO:0005544 | calcium-dependent phospholipid binding(GO:0005544) |
| 0.1 | 2.3 | GO:0004089 | carbonate dehydratase activity(GO:0004089) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 3.7 | PID RXR VDR PATHWAY | RXR and RAR heterodimerization with other nuclear receptor |
| 0.1 | 2.1 | SA TRKA RECEPTOR | The TrkA receptor binds nerve growth factor to activate MAP kinase pathways and promote cell growth. |
| 0.1 | 1.9 | PID NETRIN PATHWAY | Netrin-mediated signaling events |
| 0.1 | 1.7 | PID VEGFR1 2 PATHWAY | Signaling events mediated by VEGFR1 and VEGFR2 |
| 0.1 | 1.2 | PID LPA4 PATHWAY | LPA4-mediated signaling events |
| 0.1 | 1.0 | PID ERB GENOMIC PATHWAY | Validated nuclear estrogen receptor beta network |
| 0.0 | 0.8 | SA CASPASE CASCADE | Apoptosis is mediated by caspases, cysteine proteases arranged in a proteolytic cascade. |
| 0.0 | 0.3 | ST G ALPHA S PATHWAY | G alpha s Pathway |
| 0.0 | 0.1 | PID INTEGRIN4 PATHWAY | Alpha6 beta4 integrin-ligand interactions |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 4.8 | REACTOME SYNTHESIS OF GLYCOSYLPHOSPHATIDYLINOSITOL GPI | Genes involved in Synthesis of glycosylphosphatidylinositol (GPI) |
| 0.1 | 3.0 | REACTOME NUCLEAR RECEPTOR TRANSCRIPTION PATHWAY | Genes involved in Nuclear Receptor transcription pathway |
| 0.1 | 1.9 | REACTOME NETRIN1 SIGNALING | Genes involved in Netrin-1 signaling |
| 0.1 | 1.8 | REACTOME BILE SALT AND ORGANIC ANION SLC TRANSPORTERS | Genes involved in Bile salt and organic anion SLC transporters |
| 0.1 | 1.8 | REACTOME REGULATION OF SIGNALING BY CBL | Genes involved in Regulation of signaling by CBL |
| 0.1 | 1.7 | REACTOME SMOOTH MUSCLE CONTRACTION | Genes involved in Smooth Muscle Contraction |
| 0.1 | 1.4 | REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION | Genes involved in Amino acid synthesis and interconversion (transamination) |
| 0.1 | 1.2 | REACTOME ADENYLATE CYCLASE ACTIVATING PATHWAY | Genes involved in Adenylate cyclase activating pathway |
| 0.1 | 1.2 | REACTOME REGULATORY RNA PATHWAYS | Genes involved in Regulatory RNA pathways |
| 0.2 | 1.1 | REACTOME INTEGRATION OF PROVIRUS | Genes involved in Integration of provirus |