longevity
bio-mcp-data
Bio-MCP-Data
A repository containing biological datasets that will be used by BIO-MCP MCP (Model Context Protocol) standard.
About
This repository hosts biological data assets formatted to be compatible with the Model Context Protocol, enabling AI models to efficiently access and process biological information. The data is managed using Git Large File Storage (LFS) to handle large biological datasets.
Purpose
Provide standardized biological datasets for AI… See the full description on the dataset page: https://huggingface.co/datasets/longevity-genie/bio-mcp-data.aging-gene-expression-single-cell-mouse
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
https://www.nature.com/articles/s41586-020-2496-1#Sec2
Code to download and process this dataset is available in: https://github.com/seanome/2025-longevity-x-ai-hackathon
Dataset structure is originally from AnnData.
Descriptions of each data file is below.
Data Files
This dataset contains multiple parquet files, one for each sheet in the original Excel file:… See the full description on the dataset page: https://huggingface.co/datasets/longevity-db/aging-gene-expression-single-cell-mouse.gene-expression-single-cell-mouse
A single-cell transcriptomic atlas characterizes ageing tissues in the mouse
Code to download and process this dataset is available in: https://github.com/seanome/2025-longevity-x-ai-hackathon
Dataset structure is originally from AnnData.
Descriptions of each data file is below.
Data Files
This dataset contains multiple parquet files, one for each sheet in the original Excel file:
gene-expression-single-cell-mouse_*.parquet - Data files containing gene expression and… See the full description on the dataset page: https://huggingface.co/datasets/longevity-db/gene-expression-single-cell-mouse.cell2sentence4longevity-data
Dataset Card: longevity-genie/cell2sentence4longevity-data
Summary
This repository contains preprocessed single-cell RNA-seq (scRNA‑seq) datasets prepared as “cell sentences” for training and evaluation of cells2sentence-style models. Each cell is represented as a space‑separated sequence of top expressed gene symbols, enabling language‑model style training for tasks such as biological age prediction and other downstream applications.
This dataset targets fine‑tuning and… See the full description on the dataset page: https://huggingface.co/datasets/longevity-genie/cell2sentence4longevity-data.aging-fly-cell-atlas
🧬 Aging Fly Cell Atlas (AFCA) - Complete Dataset
Comprehensive single-nucleus transcriptomic atlas of aging in Drosophila melanogaster covering both head and body tissues for longevity research and machine learning applications
📊 Dataset Overview
Original Study: Lu et al., Science 2023Interactive Atlas: hongjielilab.org/afcaGEO Repository: GSE218661Processing Repository: github.com/winternewt/aging-fly-cell-atlas - Complete data processing pipeline
This dataset… See the full description on the dataset page: https://huggingface.co/datasets/longevity-db/aging-fly-cell-atlas.skeletal-muscle-atlas
🧬 Human Skeletal Muscle Aging Atlas - 10X Chromium Dataset
A comprehensive single-cell RNA-seq atlas of human skeletal muscle aging across the lifespan (15-75 years)
Skeletal muscle aging is characterized by progressive loss of muscle mass and strength, often leading to sarcopenia and frailty in older adults. This dataset originates from the Human Skeletal Muscle Aging Atlas study published in Nature Aging (2024), which provides molecular insights into how aging affects different… See the full description on the dataset page: https://huggingface.co/datasets/longevity-db/skeletal-muscle-atlas.