Parabiosis single-cell data viewer

Work Group

Project Lead(s)

Project Status


Project Deliverables

Posit Connect interface that enables interactive exploration of the data


HMS Department

Stem Cell and Regenerative Biology

Project Description

The Rubin lab studies aging using heterochronic parabiosis, a surgical procedure whereby young and old mice are joined together so that they share a common circulatory system. To better understand aging-associated brain deterioration and potentially modifiable or even reversible aspects of it, the Rubin lab has performed single-cell transcriptomic profiling of young and old mouse brains after parabiosis. The data consists of 10x Genomics single-cell RNA-seq measurements for roughly 160k cells obtained from heterochronic pairs in which 3- to 4-month-old mice were joined with 20- to 22-month-old mice. In a collaboration with HMS Research Computing, CCB equipped the Rubin lab with a cloud-based Posit Connect server, and helped deploying a performant R/Shiny application to the server to enable interactive exploration of the data.


Parabiosis data viewer:


This project contributed to the research for the publications listed below:

  • Heterochronic parabiosis reprograms the mouse brain transcriptome by shifting aging signatures in multiple cell types

    Authors: Methodios Ximerakis, Kristina M. Holton, Richard M. Giadone, Ceren Ozek, Monika Saxena, Samara Santiago, Xian Adiconis, Danielle Dionne, Lan Nguyen, Kavya M. Shah, Jill M. Goldstein, Caterina Gasperini, Ioannis A. Gampierakis, Scott L. Lipnick, Sean K. Simmons, Sean M. Buchanan, Amy J. Wagers, Aviv Regev, Joshua Z. Levin & Lee L. Rubin

    Nature Aging ,09 March 2023

    View full abstract