metadata
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
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