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README.md
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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 molecular function and activities of specific genes. The GO exists as a heirarchy, and we subset to GO terms at most 3 levels away from the molecular function 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:0004672": 0, "GO:0008201": 1, "GO:0003723": 2, "GO:0005102": 3, "GO:0019904": 4, "GO:0019899": 5, "GO:0046983": 6, "GO:0051015": 7, "GO:0000981": 8, "GO:0005516": 9, "GO:0042802": 10, "GO:0020037": 11, "GO:0003677": 12, "GO:0042393": 13, "GO:0003714": 14, "GO:0005178": 15, "GO:0004888": 16, "GO:0005543": 17, "GO:0044325": 18, "GO:0003713": 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
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