Pediatric Cell Browser

As the use of single-cell technologies has grown, so has the need for tools to explore the large, complex datasets they generate.

The Pediatric Cell Browser, launched by the Steve and Cindy Rasmussen Institute for Genomic Medicine at Nationwide Children’s Hospital, marks the first public repository dedicated to pediatric single-cell gene expression data.

Hosting datasets from the Steve and Cindy Rasmussen Institute for Genomic Medicine and collaborators across Nationwide Children’s allows scientists to go beyond grant requirements to share data in a more user-friendly way. The database is searchable, and data can be browsed in an interactive format, allowing users to query, color-code and visualize gene expression, chromatin accessibility, cell type clusters and associated metadata annotations throughout a single-cell dataset or multiple datasets.

For general questions or to inquire about use of data for research, contact PediatricCellBrowser@NationwideChildrens.org. 

For Researchers

The Pediatric Cell Browser hosts single-cell transcriptomic and/or epigenomic datasets representing a variety of tissues, cell types and disease states from both patients and non-human models.  

The Nationwide Children’s Pediatric Cell Browser is hosted using the UCSC Cell Browser, a fast, free, lightweight, software tool for single-cell RNA expression data. Learn more: Single cell resources at UCSC.

If you use the Pediatrics Cell Browser in your research, please include an acknowledgement and cite the UCSC Bioinformatics paper [UCSC Cell Browser: Visualize Your Single-Cell Data - PubMed (nih.gov)]. Additionally, please cite the original authors of any dataset you utilize (visible under ‘Info & Download’ while viewing that dataset). 

The viewer shows cells as a dimensionality reduction plot, allowing for visual comparisons of large single-cell datasets in 2D, as well as layout and batch correction methods. Data overlays include expression data, metadata, marker gene levels and cell clustering information.

Contribute Data

Nationwide Children’s researchers interested in contributing data should contact PediatricCellBrowser@NationwideChildrens.org.  

For Families

Many cell types work together in every part of the body. Through single-cell biology, researchers are working to understand what different cell types do and how disease affects them. The Pediatric Cell Browser allows researchers to share and visualize single-cell datasets to better understand and treat illness. 

Datasets

Use the table below to explore our growing collection of single-cell sequencing datasets generated by scientists at Nationwide Children’s. Original publications are linked to each dataset. 

Name of Dataset Assay Source Tissue Disease PubMed Open Dataset