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--- |
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license: cc-by-4.0 |
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task_categories: |
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- feature-extraction |
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- table-to-text |
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tags: |
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- biology |
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- bioinformatics |
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- genomics |
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- protein-structure |
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- alphafold3 |
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- insect-science |
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pretty_name: InsectBase 3.0 Genomics and Protein Structures |
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configs: |
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- config_name: default |
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data_files: |
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- split: train |
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path: "InsectBase_Genome/*" |
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--- |
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# InsectBase 3.0: A Comprehensive Multi-omics Resource for Insects |
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[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. |
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## Dataset Description |
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- **Homepage:** [https://www.insect-genome.com/](https://www.insect-genome.com/) |
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- **Paper:** [Nucleic Acids Research (2025)](https://doi.org/10.1093/nar/gkaf1248) |
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- **Repository Contents:** |
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- `InsectBase_Genome/`: Large-scale insect genomic sequences (FASTA format). |
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- `InsectBase_Protein_Structure/`: High-confidence protein structures predicted via AlphaFold 3. |
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--- |
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## 1. InsectBase_Genome |
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This subset contains the comprehensive insect genome assembly files in FASTA format. |
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### File Reconstruction |
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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: |
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```bash |
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# Navigate to the download folder |
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cd InsectBase_Genome |
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# Merge the split parts back into a single tar.gz file |
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cat InsectBase_genome.tar.gz.part* > InsectBase_genome.tar.gz |
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# Extract the FASTA files |
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tar -zxvf InsectBase_genome.tar.gz |
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# (Optional) Verify integrity if sha256.txt is provided |
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sha256sum -c sha256.txt |
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``` |
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--- |
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## 2. InsectBase_Protein_Structure |
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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. |
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- **Format:** `.pdb` or `.mmCIF` (compressed within family-specific archives). |
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- **Scope:** Covers major gene families critical to insect development, immunity, and metabolic processes. |
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--- |
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## Citation |
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If you use this dataset or the resources from InsectBase in your research, please cite the following paper published in *Nucleic Acids Research*: |
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> 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) |
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--- |
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## Contact & Support |
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For more detailed information, interactive tools, and additional omics data (Transcriptomics, Metabolomics, etc.), please visit our official website: |
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**[https://www.insect-genome.com/](https://www.insect-genome.com/)** |
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For technical issues regarding the data hosted on Hugging Face, please open an issue in this repository. |
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