HCSGD entry for TARDBP
1. General information
| Official gene symbol | TARDBP |
|---|---|
| Entrez ID | 23435 |
| Gene full name | TAR DNA binding protein |
| Other gene symbols | ALS10 TDP-43 |
| 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:0000166 | Nucleotide binding | IEA | molecular_function |
| GO:0003676 | Nucleic acid binding | IEA | molecular_function |
| GO:0003677 | DNA binding | IEA | molecular_function |
| GO:0003690 | Double-stranded DNA binding | IDA | molecular_function |
| GO:0003700 | Sequence-specific DNA binding transcription factor activity | TAS | molecular_function |
| GO:0003723 | RNA binding | IDA | molecular_function |
| GO:0003730 | MRNA 3'-UTR binding | IDA | molecular_function |
| GO:0005515 | Protein binding | IPI | molecular_function |
| GO:0005634 | Nucleus | IDA | cellular_component |
| GO:0005730 | Nucleolus | IDA | cellular_component |
| GO:0006366 | Transcription from RNA polymerase II promoter | TAS | biological_process |
| GO:0006397 | MRNA processing | IEA | biological_process |
| GO:0008219 | Cell death | IEA | biological_process |
| GO:0008380 | RNA splicing | IDA | biological_process |
| GO:0042802 | Identical protein binding | IPI | molecular_function |
| GO:0043922 | Negative regulation by host of viral transcription | IDA | biological_process |
| GO:0070935 | 3'-UTR-mediated mRNA stabilization | IDA | biological_process |
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4. Expression levels in datasets
- Meta-analysis result
| p-value up | p-value down | FDR up | FDR down |
|---|---|---|---|
| 0.9166376999 | 0.2064038448 | 0.9999902473 | 0.8810078482 |
- 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 | Down | -0.0566207689 |
| GSE13712_SHEAR | Up | 0.0147134767 |
| GSE13712_STATIC | Down | -0.1244248017 |
| GSE19018 | Down | -0.0628764359 |
| GSE19899_A1 | Down | -0.3293540332 |
| GSE19899_A2 | Up | 0.0942853196 |
| PubMed_21979375_A1 | Down | -0.1466129352 |
| PubMed_21979375_A2 | Down | -0.1580043811 |
| GSE35957 | Down | -0.2022558159 |
| GSE36640 | Down | -0.1020902313 |
| GSE54402 | Up | 0.1556098614 |
| GSE9593 | Down | -0.3729890721 |
| GSE43922 | Down | -0.1425267692 |
| GSE24585 | Down | -0.1472183642 |
| GSE37065 | Down | -0.0167644712 |
| GSE28863_A1 | Up | 0.1857696432 |
| GSE28863_A2 | Up | 0.3570963959 |
| GSE28863_A3 | Down | -0.2346938344 |
| GSE28863_A4 | Up | 0.1832499494 |
| GSE48662 | Down | -0.2767176754 |
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-186-5p | MIMAT0000456 | MIRT021204 | Sequencing | Functional MTI (Weak) | 20371350 |
| hsa-miR-192-5p | MIMAT0000222 | MIRT026694 | Microarray | Functional MTI (Weak) | 19074876 |
| hsa-miR-1229-3p | MIMAT0005584 | MIRT036282 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-93-3p | MIMAT0004509 | MIRT038804 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-125b-5p | MIMAT0000423 | MIRT046010 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-15b-5p | MIMAT0000417 | MIRT046426 | CLASH | Functional MTI (Weak) | 23622248 |
| hsa-miR-1260b | MIMAT0015041 | MIRT052712 | 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: 1 abstracts the gene occurs.
PubMed ID of the article | Sentenece the gene occurs |
|---|---|
| 22733568 | Loss-of-function mutations in progranulin (GRN) are associated with frontotemporal lobar degeneration with intraneuronal ubiquitinated protein accumulations composed primarily of hyperphosphorylated TDP-43 (FTLD-TDP) |
| 22733568 | The mechanism by which GRN deficiency causes TDP-43 pathology or neurodegeneration remains elusive |
| 22733568 | Although phosphorylated TDP-43 could not be detected in the ubiquitinated inclusions, elevated levels of hyperphosphorylated full-length TDP-43 were recovered from detergent-insoluble brain fractions of Grn(-/-) mice |
| 22733568 | Phosphorylated TDP-43 increased with age and was primarily extracted from the nuclear fraction |
| 22733568 | Our data suggest that progranulin deficiency in mice leads to reduced survival in adulthood and increased cellular ageing accompanied by hyperphosphorylation of TDP-43, and recapitulates key aspects of FTLD-TDP neuropathology |
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