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.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.Tabula_Muris_Senis_10x
🧬 Tabula Muris Senis – 10x Dataset (Mouse Aging Atlas)
Organism: Mus musculusAssay: 10x Genomics Single Cell 3' v2Tissues: 16 mouse tissues (e.g., heart, lung, kidney, liver)Cells: 245,000+ single cellsAge groups: Spanning mouse lifespan (young to old)
📖 Dataset Description
This dataset is a subset of the Tabula Muris Senis project, a collaborative effort to create a comprehensive single-cell transcriptomic atlas of aging in the mouse. The 10x portion of the data… See the full description on the dataset page: https://huggingface.co/datasets/longevity-db/Tabula_Muris_Senis_10x.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.tabula-muris-senis-bladder-smartseq2
Bladder Tissue from Tabula Muris Senis
Tabula Muris Senis is a mammalian aging single-cell gene expression dataset, downloaded from https://cellxgene.cziscience.com/collections/0b9d8a04-bb9d-44da-aa27-705bb65b54eb. This dataset represents the Bladder tissue, using the SmartSeq2 full-length mRNA library preparation method for single cells.
Code to download and process this dataset is available in: https://github.com/seanome/2025-longevity-x-ai-hackathon
Ageing is characterized by a… See the full description on the dataset page: https://huggingface.co/datasets/longevity-db/tabula-muris-senis-bladder-smartseq2.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.