| --- |
| license: unknown |
| tags: |
| - biology |
| - rna |
| - genomics |
| --- |
| # Overview |
|
|
| Internal ribosome entry sites (IRESs) enable cap-independent translation |
| initiation. This binary classification dataset contains 46,774 unique |
| sequences: 37,602 non-IRES examples and 9,172 IRES examples. The target |
| corresponds to the source dataset's `IRES_class_600` label. |
|
|
| The sequences combine a high-throughput oligo assay with entries from |
| IRESbase, IRESite, Rfam, and the IRESpred training data. The original source |
| collection is retained for each row. The dataset mixes 5' UTR fragments with |
| viral-genome/CDS fragments, known IRES mutants, synthetic constructs, and controls. |
|
|
| This dataset is redistributed as part of mRNABench: https://github.com/morrislab/mRNABench |
|
|
| # Data Format |
|
|
| Description of data columns: |
| - `transcript_id`: Identifier supplied by the source dataset. |
| - `sequence`: Candidate IRES sequence using the DNA alphabet. |
| - `cds`: Length-matched all-zero track because consistent coding-sequence annotations are unavailable. |
| - `splice`: Length-matched all-zero track because consistent splice-junction annotations are unavailable. |
| - `target`: Binary IRES activity label, where `1` is IRES and `0` is non-IRES. |
| - `description`: Original sequence collection in `source=<name>` format. |
|
|
| # Data Source |
| This dataset is a Hugging Face redistribution of the IRES classification |
| dataset assembled for UTR-LM. It combines multiple source collections with |
| different licensing terms, and no single redistribution license is specified. |
| Listed below are the data sources and citation: |
|
|
| Original paper: https://doi.org/10.1038/s42256-024-00823-9 |
| Original dataset source: https://github.com/a96123155/IRES_Prediction_Design |
| Citation: Chu, Y. et al. A 5' UTR language model for decoding untranslated regions of mRNA and function predictions. Nat Mach Intell 6, 449-460 (2024). https://doi.org/10.1038/s42256-024-00823-9 |
|
|
