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--- |
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license: cc-by-4.0 |
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tags: |
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- biology |
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- rna |
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- genomics |
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--- |
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# Overview |
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Gene Ontology (GO) is a database of gene-level functional annotations. This specific dataset collects the cellular components and activities of specific genes. The GO exists as a heirarchy, and we subset to GO terms at most 3 levels away from the cellular components root. |
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This dataset is redistributed as part of mRNABench: https://github.com/morrislab/mRNABench |
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# Data Format |
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Description of data columns: |
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- `target`: Multihot label indicating GO terms applicable to transcript. |
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The label positions correspond to: `["GO:0030426": 0, "GO:0031012": 1, "GO:0043025": 2, "GO:0016607": 3, "GO:0005635": 4, "GO:0000151": 5, "GO:0000786": 6, "GO:0043197": 7, "GO:0000781": 8, "GO:0005681": 9, "GO:0032587": 10, "GO:0016605": 11, "GO:0036064": 12, "GO:0000776": 13, "GO:0005938": 14, "GO:0045202": 15, "GO:0005813": 16, "GO:0009897": 17, "GO:0005886": 18, "GO:0090575": 19]` |
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- `cds`: Binary track which reports position of first nucleotide in each codon in CDS. |
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- `splice`: Binary track which reports position of the 3' end of each exon, indicating splice sites. |
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# Data Source |
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This dataset is processed using data collected in the [Gene Ontology Resource](https://geneontology.org/), which is licensed under the Creative Commons Attribution 4.0 Unported License. |
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Original papers: |
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- https://pmc.ncbi.nlm.nih.gov/articles/PMC3037419/ |
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- https://pmc.ncbi.nlm.nih.gov/articles/PMC10158837/pdf/iyad031.pdf |
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Original dataset source: https://geneontology.org/docs/download-go-annotations/ |
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Citations: |
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- Ashburner et al. Gene ontology: tool for the unification of biology. Nat Genet. 2000 May;25(1):25-9. DOI: 10.1038/75556 |
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- The Gene Ontology Consortium. The Gene Ontology knowledgebase in 2023. Genetics. 2023 May 4;224(1):iyad031. DOI: 10.1093/genetics/iyad031 |
