README.md

---
license: mit
---

## Summary
This dataset is constructed based on annotations from **Ensembl** Database. 
Through a filtration pipeline, genomic element sequences—including **3' UTR, 5' UTR, Exon, and Protein-coding gene**—were extracted and integrated. 
The task aims to evaluate the model's ability to resolve complex, overlapping, and highly sequence-specific features within the genome.

## Usage
```python
from datasets import load_dataset
#Download the whole dataset
dataset = load_dataset("BGI-HangzhouAI/Benchmark_Dataset-Genomic_element_classification")
#Download a specific task
task_name = "Human_genomic_element_classification"
dataset = load_dataset(
    "BGI-HangzhouAI/Benchmark_Dataset-Genomic_element_classification",
    data_files = {
        "train": f"{task_name}/train.jsonl",
        "test": f"{task_name}/test.jsonl",
        "eval": f"{task_name}/eval.jsonl",
    }
)
```

## Detailed Information
| Task       | Input fields     |  Train Seqs|   Validation Seqs| Test Seqs |Max sequence length|
|:-------------:|:------------------:|:---------------:|:-------------------:|:--------------:|:----:|
| Human_genomic_element_classification      |{seq, label}     | 12,000        | 6,000               | 6,000        |1,024|
| Mouse_genomic_element_classification      |{seq, label}     |  12,000       | 6,000               | 6,000        |1,024|
| Multi_species_exon_classification         |{seq, label}     | 16,346        | 7,592               | 7,593        |1,024|

### Human_genomic_element_classification / Mouse_genomic_element_classification
| Genomic element | Label | 
|:---------:|:-----------:|
|3' UTR|0|
|5' UTR|1|
|Exon|2|
|Protein-coding gene|3|

### Multi_species_exon_classification
| Species | Label | 
|:---------:|:-----------:|
|Human|0|
|Worm|1|
|Chicken|2|
|Fruit Fly|3|
|Mouse|4|
|Zebrafish|5|

## Final format  
Datasets are saved in JSONL format. Each file contains:
- `"seq"` — the DNA sequence string (A/C/G/T, uppercase)  
- `"label"` — multi class indicator