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GSE53960: rat RNA-Seq transcriptomic Bodymap
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Results for Hoxc9
Z-value: 1.09
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Transcription factors associated with Hoxc9
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| Hoxc9 | rn6_v1_chr7_+_144595960_144595960 | 0.43 | 4.2e-16 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr20_+_26999795 Show fit | 53.50 |
ENSRNOT00000057872
|
myopalladin |
|
| chr7_-_29171783 Show fit | 50.68 |
ENSRNOT00000079235
|
myosin binding protein C, slow type |
|
| chr19_+_50848736 Show fit | 45.04 |
ENSRNOT00000077053
|
cadherin 13 |
|
| chr10_-_8498422 Show fit | 43.99 |
ENSRNOT00000082332
|
RNA binding protein, fox-1 homolog 1 |
|
| chr17_-_78735324 Show fit | 37.71 |
ENSRNOT00000036299
|
cerebral dopamine neurotrophic factor |
|
| chr1_-_215838209 Show fit | 37.68 |
ENSRNOT00000050760
|
insulin-like growth factor 2 |
|
| chr1_+_167870452 Show fit | 34.32 |
ENSRNOT00000025027
|
olfactory receptor 63 |
|
| chr8_+_64481172 Show fit | 34.11 |
ENSRNOT00000015332
|
pyruvate kinase, muscle |
|
| chr13_+_106463368 Show fit | 32.37 |
ENSRNOT00000003489
|
estrogen-related receptor gamma |
|
| chr7_-_130120579 Show fit | 31.89 |
ENSRNOT00000044376
|
mitogen-activated protein kinase 12 |
Network of associatons between targets according to the STRING database.
First level regulatory network of Hoxc9
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 4.9 | 53.5 | GO:0048739 | cardiac muscle fiber development(GO:0048739) |
| 0.0 | 51.1 | GO:0050911 | detection of chemical stimulus involved in sensory perception of smell(GO:0050911) |
| 5.1 | 50.7 | GO:0071688 | striated muscle myosin thick filament assembly(GO:0071688) |
| 5.6 | 45.0 | GO:0055095 | lipoprotein particle mediated signaling(GO:0055095) low-density lipoprotein particle mediated signaling(GO:0055096) |
| 1.8 | 44.0 | GO:2001014 | regulation of skeletal muscle cell differentiation(GO:2001014) |
| 5.4 | 37.7 | GO:0038028 | insulin receptor signaling pathway via phosphatidylinositol 3-kinase(GO:0038028) |
| 0.8 | 37.7 | GO:0071542 | dopaminergic neuron differentiation(GO:0071542) |
| 3.4 | 34.1 | GO:0042866 | pyruvate biosynthetic process(GO:0042866) |
| 0.8 | 32.4 | GO:0048384 | retinoic acid receptor signaling pathway(GO:0048384) |
| 4.0 | 27.9 | GO:0045200 | establishment or maintenance of neuroblast polarity(GO:0045196) establishment of neuroblast polarity(GO:0045200) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 75.5 | GO:0005886 | plasma membrane(GO:0005886) |
| 0.4 | 53.5 | GO:0030018 | Z disc(GO:0030018) |
| 4.2 | 50.7 | GO:0005859 | muscle myosin complex(GO:0005859) |
| 0.0 | 47.0 | GO:0005739 | mitochondrion(GO:0005739) |
| 0.4 | 44.0 | GO:0005901 | caveola(GO:0005901) |
| 0.0 | 43.7 | GO:0005615 | extracellular space(GO:0005615) |
| 0.1 | 34.1 | GO:0061695 | transferase complex, transferring phosphorus-containing groups(GO:0061695) |
| 0.2 | 30.8 | GO:0005802 | trans-Golgi network(GO:0005802) |
| 0.5 | 27.9 | GO:0016328 | lateral plasma membrane(GO:0016328) |
| 0.2 | 25.7 | GO:0090575 | RNA polymerase II transcription factor complex(GO:0090575) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 6.5 | 104.2 | GO:0051371 | muscle alpha-actinin binding(GO:0051371) |
| 0.0 | 51.1 | GO:0004984 | olfactory receptor activity(GO:0004984) |
| 11.3 | 45.0 | GO:0055100 | adiponectin binding(GO:0055100) |
| 0.2 | 41.9 | GO:0008022 | protein C-terminus binding(GO:0008022) |
| 8.5 | 34.1 | GO:0004743 | pyruvate kinase activity(GO:0004743) |
| 8.1 | 32.4 | GO:0050682 | AF-2 domain binding(GO:0050682) |
| 1.1 | 31.9 | GO:0004707 | MAP kinase activity(GO:0004707) |
| 1.4 | 31.7 | GO:0005159 | insulin-like growth factor receptor binding(GO:0005159) |
| 0.2 | 31.4 | GO:0008083 | growth factor activity(GO:0008083) |
| 0.6 | 27.9 | GO:0048487 | beta-tubulin binding(GO:0048487) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 36.7 | PID AJDISS 2PATHWAY | Posttranslational regulation of adherens junction stability and dissassembly |
| 2.5 | 31.9 | PID P38 GAMMA DELTA PATHWAY | Signaling mediated by p38-gamma and p38-delta |
| 0.1 | 21.4 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.1 | 18.4 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.4 | 15.1 | PID INTEGRIN A4B1 PATHWAY | Alpha4 beta1 integrin signaling events |
| 0.4 | 13.1 | ST MYOCYTE AD PATHWAY | Myocyte Adrenergic Pathway is a specific case of the generalized Adrenergic Pathway. |
| 0.5 | 11.1 | PID HEDGEHOG 2PATHWAY | Signaling events mediated by the Hedgehog family |
| 0.1 | 10.9 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.1 | 8.8 | PID INTEGRIN1 PATHWAY | Beta1 integrin cell surface interactions |
| 0.2 | 8.7 | PID RAS PATHWAY | Regulation of Ras family activation |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 64.8 | REACTOME NUCLEAR RECEPTOR TRANSCRIPTION PATHWAY | Genes involved in Nuclear Receptor transcription pathway |
| 1.3 | 50.7 | REACTOME STRIATED MUSCLE CONTRACTION | Genes involved in Striated Muscle Contraction |
| 1.8 | 37.7 | REACTOME REGULATION OF INSULIN LIKE GROWTH FACTOR IGF ACTIVITY BY INSULIN LIKE GROWTH FACTOR BINDING PROTEINS IGFBPS | Genes involved in Regulation of Insulin-like Growth Factor (IGF) Activity by Insulin-like Growth Factor Binding Proteins (IGFBPs) |
| 1.3 | 36.1 | REACTOME ADHERENS JUNCTIONS INTERACTIONS | Genes involved in Adherens junctions interactions |
| 2.1 | 31.9 | REACTOME P38MAPK EVENTS | Genes involved in p38MAPK events |
| 0.1 | 21.5 | REACTOME G ALPHA I SIGNALLING EVENTS | Genes involved in G alpha (i) signalling events |
| 0.8 | 18.7 | REACTOME NA CL DEPENDENT NEUROTRANSMITTER TRANSPORTERS | Genes involved in Na+/Cl- dependent neurotransmitter transporters |
| 0.6 | 18.4 | REACTOME TRANSFERRIN ENDOCYTOSIS AND RECYCLING | Genes involved in Transferrin endocytosis and recycling |
| 0.4 | 16.3 | REACTOME NCAM1 INTERACTIONS | Genes involved in NCAM1 interactions |
| 0.1 | 15.1 | REACTOME SIGNALING BY PDGF | Genes involved in Signaling by PDGF |