---
license: cc-by-4.0
task_categories:
- feature-extraction
- table-to-text
tags:
- biology
- bioinformatics
- genomics
- protein-structure
- alphafold3
- insect-science
pretty_name: InsectBase 3.0 Genomics and Protein Structures
configs:
- config_name: default
  data_files:
  - split: train
    path: "InsectBase_Genome/*"
---

# InsectBase 3.0: A Comprehensive Multi-omics Resource for Insects

[InsectBase](https://www.insect-genome.com/) is a specialized bioinformatics database providing extensive genomic and multi-omic resources for the insect research community. This repository hosts the high-throughput genomic sequences and predicted protein structures associated with the **InsectBase 3.0** update.

## Dataset Description

- **Homepage:** [https://www.insect-genome.com/](https://www.insect-genome.com/)
- **Paper:** [Nucleic Acids Research (2025)](https://doi.org/10.1093/nar/gkaf1248)
- **Repository Contents:**
  - `InsectBase_Genome/`: Large-scale insect genomic sequences (FASTA format).
  - `InsectBase_Protein_Structure/`: High-confidence protein structures predicted via AlphaFold 3.

---

## 1. InsectBase_Genome
This subset contains the comprehensive insect genome assembly files in FASTA format. 

### File Reconstruction
Due to the massive size of the genomic data (~400GB), the archive has been split into multiple chunks (7-10 parts) to ensure stable downloading. To reconstruct the original file, please use the following commands in your terminal:

```bash
# Navigate to the download folder
cd InsectBase_Genome

# Merge the split parts back into a single tar.gz file
cat InsectBase_genome.tar.gz.part* > InsectBase_genome.tar.gz

# Extract the FASTA files
tar -zxvf InsectBase_genome.tar.gz

# (Optional) Verify integrity if sha256.txt is provided
sha256sum -c sha256.txt
```

---

## 2. InsectBase_Protein_Structure
This subset provides structural data for **29 specific gene families**. These structures were generated using **AlphaFold 3**, providing state-of-the-art accuracy for protein-insect physiological research and evolutionary analysis.

- **Format:** `.pdb` or `.mmCIF` (compressed within family-specific archives).
- **Scope:** Covers major gene families critical to insect development, immunity, and metabolic processes.

---

## Citation

If you use this dataset or the resources from InsectBase in your research, please cite the following paper published in *Nucleic Acids Research*:

> Zuoqi Wang, Hao Chen, Shuo Jin, Zonghuan Li, Yang Mei, Yiqi Xiao, Chenfan Zhao, Tianyu Zhou, Fei Li, Ying Liu, Kang He, **InsectBase 3.0: a comprehensive multi-omics resource for insects**, *Nucleic Acids Research*, 2025;, gkaf1248, [https://doi.org/10.1093/nar/gkaf1248](https://doi.org/10.1093/nar/gkaf1248)

---

## Contact & Support
For more detailed information, interactive tools, and additional omics data (Transcriptomics, Metabolomics, etc.), please visit our official website:
**[https://www.insect-genome.com/](https://www.insect-genome.com/)**

For technical issues regarding the data hosted on Hugging Face, please open an issue in this repository.