HCSGD entry for FXN
1. General information
| Official gene symbol | FXN |
|---|---|
| Entrez ID | 2395 |
| Gene full name | frataxin |
| Other gene symbols | CyaY FA FARR FRDA X25 |
| Links to Entrez Gene | Links to Entrez Gene |
2. Neighbors in the network
This gene isn't in PPI subnetwork.
3. Gene ontology annotation
GO ID | GO term | Evidence | Category |
|---|---|---|---|
| GO:0004322 | Ferroxidase activity | IDA IEA | molecular_function |
| GO:0005515 | Protein binding | IPI | molecular_function |
| GO:0005739 | Mitochondrion | IDA IEA | cellular_component |
| GO:0005759 | Mitochondrial matrix | ISS NAS TAS | cellular_component |
| GO:0005829 | Cytosol | IDA | cellular_component |
| GO:0006119 | Oxidative phosphorylation | IEA | biological_process |
| GO:0006783 | Heme biosynthetic process | NAS | biological_process |
| GO:0006811 | Ion transport | IEA | biological_process |
| GO:0006879 | Cellular iron ion homeostasis | IEA IMP | biological_process |
| GO:0007005 | Mitochondrion organization | IEA | biological_process |
| GO:0007628 | Adult walking behavior | IEA | biological_process |
| GO:0008198 | Ferrous iron binding | IDA | molecular_function |
| GO:0008199 | Ferric iron binding | IDA IEA | molecular_function |
| GO:0008284 | Positive regulation of cell proliferation | IMP | biological_process |
| GO:0009060 | Aerobic respiration | IEA | biological_process |
| GO:0009792 | Embryo development ending in birth or egg hatching | IEA | biological_process |
| GO:0010039 | Response to iron ion | IMP | biological_process |
| GO:0010722 | Regulation of ferrochelatase activity | IDA | biological_process |
| GO:0016226 | Iron-sulfur cluster assembly | IEA | biological_process |
| GO:0016540 | Protein autoprocessing | IDA | biological_process |
| GO:0018283 | Iron incorporation into metallo-sulfur cluster | IDA | biological_process |
| GO:0019230 | Proprioception | IEA | biological_process |
| GO:0030307 | Positive regulation of cell growth | IMP | biological_process |
| GO:0034986 | Iron chaperone activity | IDA | molecular_function |
| GO:0040015 | Negative regulation of multicellular organism growth | IEA | biological_process |
| GO:0043066 | Negative regulation of apoptotic process | IMP | biological_process |
| GO:0044281 | Small molecule metabolic process | TAS | biological_process |
| GO:0046621 | Negative regulation of organ growth | IEA | biological_process |
| GO:0048554 | Positive regulation of metalloenzyme activity | IMP | biological_process |
| GO:0051347 | Positive regulation of transferase activity | IMP | biological_process |
| GO:0051349 | Positive regulation of lyase activity | IDA IMP | biological_process |
| GO:0051353 | Positive regulation of oxidoreductase activity | IMP | biological_process |
| GO:0051536 | Iron-sulfur cluster binding | IDA | molecular_function |
| GO:0051537 | 2 iron, 2 sulfur cluster binding | IDA | molecular_function |
| GO:0070301 | Cellular response to hydrogen peroxide | IDA | biological_process |
| GO:0090201 | Negative regulation of release of cytochrome c from mitochondria | IMP | biological_process |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.1325666008 | 0.4682497436 | 0.7377187658 | 1.0000000000 |
- Individual experiment result
( "-" represent NA in the specific microarray platform )
( "-" represent NA in the specific microarray platform )
| Data source | Up or down | Log fold change |
|---|---|---|
| GSE11954 | Up | 0.0560009126 |
| GSE13712_SHEAR | Up | 0.5488527441 |
| GSE13712_STATIC | Up | 0.4125377166 |
| GSE19018 | Down | -0.2434238594 |
| GSE19899_A1 | Up | 0.0210120965 |
| GSE19899_A2 | Up | 0.7356417139 |
| PubMed_21979375_A1 | Up | 0.7904863320 |
| PubMed_21979375_A2 | Up | 0.6021968646 |
| GSE35957 | Down | -0.3657380759 |
| GSE36640 | Down | -0.0482769136 |
| GSE54402 | Up | 0.3291001740 |
| GSE9593 | Down | -0.2547262786 |
| GSE43922 | Up | 0.3144483281 |
| GSE24585 | Down | -0.9179435471 |
| GSE37065 | Down | -0.1706434739 |
| GSE28863_A1 | Up | 0.0028204860 |
| GSE28863_A2 | Down | -0.1322077923 |
| GSE28863_A3 | Up | 0.0378208388 |
| GSE28863_A4 | Up | 0.1282231225 |
| GSE48662 | Down | -0.1475309777 |
5. Regulation relationships with compounds/drugs/microRNAs
- Compounds
Not regulated by compounds
- Drugs
Not regulated by drugs
- MicroRNAs
- mirTarBase
- mirTarBase
MiRNA_name | mirBase ID | miRTarBase ID | Experiment | Support type | References (Pubmed ID) |
|---|---|---|---|---|---|
| hsa-miR-559 | MIMAT0003223 | MIRT007228 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-589-5p | MIMAT0004799 | MIRT007229 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-1270 | MIMAT0005924 | MIRT007230 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-620 | MIMAT0003289 | MIRT007231 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-522-3p | MIMAT0002868 | MIRT007232 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-299-3p | MIMAT0000687 | MIRT007233 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-506-3p | MIMAT0002878 | MIRT007234 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-124-3p | MIMAT0000422 | MIRT007235 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-624-3p | MIMAT0004807 | MIRT007236 | Luciferase reporter assay | Functional MTI | 23382970 |
| hsa-miR-935 | MIMAT0004978 | MIRT036668 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-100-5p | MIMAT0000098 | MIRT048445 | CLASH | Functional MTI (Weak) | 23622248 |
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- mirRecord
No target information from mirRecord
- mirRecord
6. Text-mining results about the gene
Gene occurances in abstracts of cellular senescence-associated articles: 2 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 27079523 | Frataxin (FXN) deficiency causes Friedreich's ataxia (FRDA), a multisystem disorder with neurological and non-neurological symptoms |
| 27079523 | FRDA pathophysiology combines developmental and degenerative processes of dorsal root ganglia (DRG), sensory nerves, dorsal columns and other central nervous structures |
| 27079523 | To go further in the understanding of the pathogenic mechanisms of neuropathy and diabetes associated with the disease, we have investigated the humanized mouse YG8R model of FRDA |
| 27079523 | By biochemical and histopathological studies, we observed abnormal changes involving muscle spindles, dorsal root axons and DRG neurons, but normal findings in the posterior columns and brain, which agree with the existence of a dying-back process similar to that described in individuals with FRDA |
| 27079523 | As a whole, these results confirm that the lack of FXN induces different pathogenic mechanisms in the nervous system and pancreas in the mouse model of FRDA: dying back of the sensory nerves, and pancreatic senescence |
| 24860428 | Mitochondrial dysfunction induced by frataxin deficiency is associated with cellular senescence and abnormal calcium metabolism |
| 24860428 | This neuropathy is caused by mutations in the FXN gene that encodes frataxin |
| 24860428 | Here, we investigated the mitochondrial and cell consequences of frataxin depletion in a cellular model based on frataxin silencing in SH-SY5Y human neuroblastoma cells, a cell line that has been used widely as in vitro models for studies on neurological diseases |
| 24860428 | We showed that the reduction of frataxin induced mitochondrial dysfunction due to a bioenergetic deficit and abnormal Ca(2+) homeostasis in the mitochondria that were associated with oxidative and endoplasmic reticulum stresses |
| 24860428 | The depletion of frataxin did not cause cell death but increased autophagy, which may have a cytoprotective effect against cellular insults such as oxidative stress |
| 24860428 | Frataxin silencing provoked slow cell growth associated with cellular senescence, as demonstrated by increased SA-betagal activity and cell cycle arrest at the G1 phase |
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