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README.md
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# GSE167186 – Single-Nucleus RNA-Seq of Aged Human Skeletal Muscle
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**Organism**: *Homo sapiens*
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**Tissue**: Human skeletal muscle
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**Samples**: 23 individuals (young and aged)
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**Technique**: 10x Genomics single-nucleus RNA-seq
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**Data Type**: Processed sparse expression matrix and cell metadata
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---
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## 🧭 Description
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This dataset contains single-nucleus transcriptomes from human skeletal muscle samples spanning young and aged adult individuals. The goal was to understand the molecular changes in muscle cells associated with aging.
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Each sample is represented by a `.h5` file in the original dataset, which we have converted into a unified sparse expression matrix and metadata file for easy access and analysis.
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---
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## 📂 Files Included
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- `GSE167186_expression_sparse.parquet`
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→ Gene expression matrix (sparse, cells × genes), saved using `scipy.sparse.save_npz`
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- `GSE167186_metadata.parquet`
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→ Cell-level metadata, including sample ID and batch assignment
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---
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## 📥 How to Use
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```python
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import pandas as pd
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from scipy import sparse
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# Load expression matrix
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X = sparse.load_npz("GSE167186_expression_sparse.parquet")
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# Load metadata
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meta = pd.read_parquet("GSE167186_metadata.parquet")
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```
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---
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## 💡 Use Cases
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- Investigating age-related changes in skeletal muscle at single-cell resolution
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- Benchmarking trajectory inference or cell clustering tools
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- Identifying differentially expressed genes between young and aged muscle
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- Studying cell-type-specific transcriptional signatures of human aging
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---
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## 🔗 Citation
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If you use this dataset, please cite:
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> Rubenstein et al. (2022). "Single-nucleus transcriptomics of human skeletal muscle reveals molecular signatures of aging." *Nature Aging*. DOI: [10.1038/s43587-022-00221-1](https://doi.org/10.1038/s43587-022-00221-1)
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---
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## 🙏 Acknowledgments
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Original dataset from GEO Accession [GSE167186](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE167186).
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Data curated and converted by Iris Lee as part of the 2025 Longevity x AI Hackathon. ### 🧑💻 Team: MultiModalMillenials. Iris Lee (`@iris8090`)
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