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GSE53960: rat RNA-Seq transcriptomic Bodymap
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Results for Zic4
Z-value: 1.01
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Transcription factors associated with Zic4
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| Zic4 | rn6_v1_chr8_+_98755104_98755104 | 0.63 | 2.2e-37 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr2_-_24923128 Show fit | 69.15 |
ENSRNOT00000044087
|
phosphodiesterase 8B |
|
| chr3_-_148428494 Show fit | 38.43 |
ENSRNOT00000011350
|
dual specificity phosphatase 15 |
|
| chr3_-_148428288 Show fit | 32.70 |
ENSRNOT00000072663
|
dual specificity phosphatase 15 |
|
| chr5_+_156876706 Show fit | 31.08 |
ENSRNOT00000021864
|
calcium/calmodulin-dependent protein kinase II inhibitor 1 |
|
| chr9_+_82120059 Show fit | 31.06 |
ENSRNOT00000057368
|
cyclin-dependent kinase 5 regulatory subunit 2 |
|
| chr10_-_91047177 Show fit | 31.02 |
ENSRNOT00000003986
|
complement C1q like 1 |
|
| chr1_+_266953139 Show fit | 29.18 |
ENSRNOT00000054696
|
neuralized E3 ubiquitin protein ligase 1 |
|
| chr5_-_40237591 Show fit | 27.57 |
ENSRNOT00000011393
|
fucosyltransferase 9 |
|
| chr19_-_9801942 Show fit | 25.87 |
ENSRNOT00000051414
ENSRNOT00000017494 |
NDRG family member 4 |
|
| chr8_-_36760742 Show fit | 23.67 |
ENSRNOT00000017307
|
DEAD-box helicase 25 |
Network of associatons between targets according to the STRING database.
First level regulatory network of Zic4
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 71.1 | GO:0035335 | peptidyl-tyrosine dephosphorylation(GO:0035335) |
| 13.8 | 69.2 | GO:0035106 | operant conditioning(GO:0035106) |
| 3.2 | 44.3 | GO:0045741 | positive regulation of epidermal growth factor-activated receptor activity(GO:0045741) |
| 5.5 | 38.3 | GO:0000160 | phosphorelay signal transduction system(GO:0000160) |
| 7.8 | 31.1 | GO:0021586 | pons maturation(GO:0021586) |
| 0.1 | 31.1 | GO:0006469 | negative regulation of protein kinase activity(GO:0006469) |
| 6.2 | 31.0 | GO:0061743 | motor learning(GO:0061743) |
| 2.0 | 27.6 | GO:0036065 | fucosylation(GO:0036065) |
| 2.9 | 25.9 | GO:2001135 | regulation of endocytic recycling(GO:2001135) |
| 3.0 | 24.0 | GO:0051970 | negative regulation of transmission of nerve impulse(GO:0051970) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 54.6 | GO:0005887 | integral component of plasma membrane(GO:0005887) |
| 0.8 | 41.2 | GO:0034707 | chloride channel complex(GO:0034707) |
| 1.2 | 40.3 | GO:0097440 | apical dendrite(GO:0097440) |
| 0.5 | 35.0 | GO:0032580 | Golgi cisterna membrane(GO:0032580) |
| 0.9 | 32.1 | GO:0032809 | neuronal cell body membrane(GO:0032809) |
| 10.4 | 31.1 | GO:0016533 | cyclin-dependent protein kinase 5 holoenzyme complex(GO:0016533) |
| 7.8 | 31.0 | GO:0044301 | climbing fiber(GO:0044301) |
| 1.0 | 31.0 | GO:0030673 | axolemma(GO:0030673) |
| 0.2 | 29.6 | GO:0031253 | cell projection membrane(GO:0031253) |
| 0.1 | 28.8 | GO:0045211 | postsynaptic membrane(GO:0045211) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.3 | 71.1 | GO:0008138 | protein tyrosine/serine/threonine phosphatase activity(GO:0008138) |
| 3.0 | 54.0 | GO:0004115 | 3',5'-cyclic-AMP phosphodiesterase activity(GO:0004115) |
| 5.5 | 38.3 | GO:0000155 | phosphorelay sensor kinase activity(GO:0000155) |
| 0.8 | 37.7 | GO:0045182 | translation regulator activity(GO:0045182) |
| 7.8 | 31.1 | GO:0008427 | calcium-dependent protein kinase inhibitor activity(GO:0008427) |
| 1.0 | 31.1 | GO:0043539 | protein serine/threonine kinase activator activity(GO:0043539) |
| 4.6 | 27.6 | GO:0046920 | alpha-(1->3)-fucosyltransferase activity(GO:0046920) |
| 8.0 | 24.0 | GO:0030977 | taurine binding(GO:0030977) |
| 0.3 | 23.7 | GO:0003724 | RNA helicase activity(GO:0003724) ATP-dependent RNA helicase activity(GO:0004004) |
| 4.6 | 23.0 | GO:0005042 | netrin receptor activity(GO:0005042) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 53.4 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 1.3 | 52.0 | PID LIS1 PATHWAY | Lissencephaly gene (LIS1) in neuronal migration and development |
| 0.6 | 23.0 | PID NETRIN PATHWAY | Netrin-mediated signaling events |
| 0.1 | 20.8 | NABA ECM AFFILIATED | Genes encoding proteins affiliated structurally or functionally to extracellular matrix proteins |
| 0.6 | 12.4 | PID HEDGEHOG 2PATHWAY | Signaling events mediated by the Hedgehog family |
| 0.4 | 10.7 | PID P38 MKK3 6PATHWAY | p38 MAPK signaling pathway |
| 0.5 | 9.9 | PID HIF1A PATHWAY | Hypoxic and oxygen homeostasis regulation of HIF-1-alpha |
| 0.3 | 8.9 | PID ALK1 PATHWAY | ALK1 signaling events |
| 0.1 | 8.6 | PID RHOA REG PATHWAY | Regulation of RhoA activity |
| 0.2 | 7.3 | PID PS1 PATHWAY | Presenilin action in Notch and Wnt signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 53.3 | REACTOME G ALPHA S SIGNALLING EVENTS | Genes involved in G alpha (s) signalling events |
| 0.9 | 48.2 | REACTOME VOLTAGE GATED POTASSIUM CHANNELS | Genes involved in Voltage gated Potassium channels |
| 1.5 | 41.2 | REACTOME LIGAND GATED ION CHANNEL TRANSPORT | Genes involved in Ligand-gated ion channel transport |
| 1.6 | 23.0 | REACTOME ROLE OF DCC IN REGULATING APOPTOSIS | Genes involved in Role of DCC in regulating apoptosis |
| 1.2 | 20.8 | REACTOME HDL MEDIATED LIPID TRANSPORT | Genes involved in HDL-mediated lipid transport |
| 0.8 | 19.0 | REACTOME PLATELET CALCIUM HOMEOSTASIS | Genes involved in Platelet calcium homeostasis |
| 0.9 | 17.2 | REACTOME TRAFFICKING OF GLUR2 CONTAINING AMPA RECEPTORS | Genes involved in Trafficking of GluR2-containing AMPA receptors |
| 0.5 | 15.6 | REACTOME KERATAN SULFATE BIOSYNTHESIS | Genes involved in Keratan sulfate biosynthesis |
| 0.6 | 14.7 | REACTOME NA CL DEPENDENT NEUROTRANSMITTER TRANSPORTERS | Genes involved in Na+/Cl- dependent neurotransmitter transporters |
| 0.9 | 14.5 | REACTOME NUCLEOTIDE LIKE PURINERGIC RECEPTORS | Genes involved in Nucleotide-like (purinergic) receptors |