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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for foxf1+foxf2a+foxf2b
Z-value: 1.42
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Transcription factors associated with foxf1+foxf2a+foxf2b
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| foxf2b | dr11_v1_chr20_+_26690036_26690036 | -0.35 | 1.5e-01 | Click! |
| foxf2a | dr11_v1_chr2_-_716426_716426 | 0.24 | 3.3e-01 | Click! |
| foxf1 | dr11_v1_chr18_+_30847237_30847237 | 0.21 | 4.0e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr22_+_11756040 Show fit | 2.75 |
ENSDART00000105808
|
keratin 97 |
|
| chr4_-_1720648 Show fit | 1.89 |
ENSDART00000103484
|
growth arrest-specific 2 like 3 |
|
| chr13_+_22675802 Show fit | 1.88 |
ENSDART00000145538
ENSDART00000143312 |
zgc:193505 |
|
| chr11_-_30508843 Show fit | 1.53 |
ENSDART00000101667
ENSDART00000179930 |
mitogen-activated protein kinase kinase kinase kinase 3a |
|
| chr23_-_33558161 Show fit | 1.52 |
ENSDART00000018301
|
integrin, alpha 5 (fibronectin receptor, alpha polypeptide) |
|
| chr1_-_6028876 Show fit | 1.50 |
ENSDART00000168117
|
si:ch1073-345a8.1 |
|
| chr1_-_50611031 Show fit | 1.46 |
ENSDART00000148285
|
protein phosphatase, Mg2+/Mn2+ dependent, 1K |
|
| chr8_-_53044300 Show fit | 1.41 |
ENSDART00000191653
|
nuclear receptor subfamily 6, group A, member 1a |
|
| chr1_+_496268 Show fit | 1.40 |
ENSDART00000109415
|
basic leucine zipper nuclear factor 1 |
|
| chr2_+_27652386 Show fit | 1.36 |
ENSDART00000188261
|
transmembrane protein 68 |
Network of associatons between targets according to the STRING database.
First level regulatory network of foxf1+foxf2a+foxf2b
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 3.0 | GO:0030917 | midbrain-hindbrain boundary development(GO:0030917) |
| 0.1 | 2.3 | GO:0048263 | determination of dorsal identity(GO:0048263) |
| 0.3 | 2.1 | GO:0045719 | negative regulation of glycogen biosynthetic process(GO:0045719) negative regulation of glycogen metabolic process(GO:0070874) |
| 0.1 | 2.0 | GO:0051310 | metaphase plate congression(GO:0051310) |
| 0.0 | 2.0 | GO:0099515 | vesicle transport along actin filament(GO:0030050) actin filament-based transport(GO:0099515) |
| 0.3 | 1.9 | GO:0021534 | cell proliferation in hindbrain(GO:0021534) |
| 0.1 | 1.9 | GO:0090279 | regulation of calcium ion import(GO:0090279) |
| 0.1 | 1.9 | GO:0048634 | regulation of muscle organ development(GO:0048634) |
| 0.1 | 1.6 | GO:0090110 | cargo loading into COPII-coated vesicle(GO:0090110) |
| 0.3 | 1.5 | GO:0090245 | axis elongation involved in somitogenesis(GO:0090245) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.5 | GO:0000775 | chromosome, centromeric region(GO:0000775) |
| 0.0 | 4.5 | GO:0005882 | intermediate filament(GO:0005882) |
| 0.0 | 4.4 | GO:0005694 | chromosome(GO:0005694) |
| 0.0 | 2.4 | GO:0031901 | early endosome membrane(GO:0031901) |
| 0.0 | 2.4 | GO:0036064 | ciliary basal body(GO:0036064) |
| 0.1 | 2.3 | GO:0005637 | nuclear inner membrane(GO:0005637) |
| 0.0 | 2.3 | GO:0000118 | histone deacetylase complex(GO:0000118) |
| 0.0 | 2.1 | GO:0031941 | filamentous actin(GO:0031941) |
| 0.0 | 2.1 | GO:0016459 | myosin complex(GO:0016459) |
| 0.0 | 1.9 | GO:0014069 | postsynaptic density(GO:0014069) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 3.4 | GO:0008017 | microtubule binding(GO:0008017) |
| 0.4 | 2.3 | GO:0008349 | MAP kinase kinase kinase kinase activity(GO:0008349) |
| 0.0 | 2.1 | GO:0042803 | protein homodimerization activity(GO:0042803) |
| 0.1 | 2.0 | GO:0070840 | dynein complex binding(GO:0070840) |
| 0.0 | 2.0 | GO:0030898 | actin-dependent ATPase activity(GO:0030898) |
| 0.0 | 2.0 | GO:0000149 | SNARE binding(GO:0000149) |
| 0.2 | 1.9 | GO:0008093 | cytoskeletal adaptor activity(GO:0008093) |
| 0.1 | 1.9 | GO:0004435 | phosphatidylinositol phospholipase C activity(GO:0004435) phospholipase C activity(GO:0004629) |
| 0.0 | 1.9 | GO:0019901 | protein kinase binding(GO:0019901) |
| 0.5 | 1.8 | GO:0016308 | 1-phosphatidylinositol-4-phosphate 5-kinase activity(GO:0016308) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.3 | PID AURORA B PATHWAY | Aurora B signaling |
| 0.1 | 2.0 | PID SYNDECAN 4 PATHWAY | Syndecan-4-mediated signaling events |
| 0.0 | 2.0 | PID FOXM1 PATHWAY | FOXM1 transcription factor network |
| 0.1 | 1.9 | PID IL8 CXCR1 PATHWAY | IL8- and CXCR1-mediated signaling events |
| 0.0 | 1.9 | PID CASPASE PATHWAY | Caspase cascade in apoptosis |
| 0.1 | 1.5 | PID NECTIN PATHWAY | Nectin adhesion pathway |
| 0.0 | 1.3 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
| 0.1 | 0.9 | PID RETINOIC ACID PATHWAY | Retinoic acid receptors-mediated signaling |
| 0.0 | 0.8 | PID CERAMIDE PATHWAY | Ceramide signaling pathway |
| 0.0 | 0.8 | PID DNA PK PATHWAY | DNA-PK pathway in nonhomologous end joining |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.4 | REACTOME MITOTIC PROMETAPHASE | Genes involved in Mitotic Prometaphase |
| 0.2 | 1.9 | REACTOME REGULATION OF INSULIN SECRETION BY ACETYLCHOLINE | Genes involved in Regulation of Insulin Secretion by Acetylcholine |
| 0.1 | 1.5 | REACTOME KINESINS | Genes involved in Kinesins |
| 0.1 | 1.4 | REACTOME REGULATORY RNA PATHWAYS | Genes involved in Regulatory RNA pathways |
| 0.0 | 1.3 | REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S | Genes involved in Activation of Chaperone Genes by XBP1(S) |
| 0.1 | 1.2 | REACTOME ELONGATION ARREST AND RECOVERY | Genes involved in Elongation arrest and recovery |
| 0.1 | 1.1 | REACTOME ANTIGEN PRESENTATION FOLDING ASSEMBLY AND PEPTIDE LOADING OF CLASS I MHC | Genes involved in Antigen Presentation: Folding, assembly and peptide loading of class I MHC |
| 0.0 | 1.1 | REACTOME SIGNAL TRANSDUCTION BY L1 | Genes involved in Signal transduction by L1 |
| 0.3 | 1.0 | REACTOME APOPTOTIC CLEAVAGE OF CELL ADHESION PROTEINS | Genes involved in Apoptotic cleavage of cell adhesion proteins |
| 0.1 | 1.0 | REACTOME DEADENYLATION OF MRNA | Genes involved in Deadenylation of mRNA |