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README.md
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---
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license:
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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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