debut of BICCN cell type data in the new Transcriptomics Explorer

The Brain Cell Data Center (BCDC) team at the Allen Institute for Brain Science is pleased to announce the debut of BICCN cell type data in the new Transcriptomics Explorer as well as the fifth public data release from the Cell Registry.

 

New content has also been added to the BICCN Portal, including information on additional tools and a new page to track BICCN data releases, news, and activities.

 

Transcriptomics Explorer: The Transcriptomics Explorer enables researchers to visualize and analyze transcriptomics data and transcriptomic cell types for mouse and human, all directly in a web browser. The datasets now made available for visualization and analysis include mouse cortex and hippocampus data generated under the U19 Zeng BICCN grant, as well as human cortex data from the U01 Lein BICCN grant.

 

Currently, researchers can:

•                     Explore a gene expression heatmap across cell types in the dataset, and search for genes of interest to inspect

•                     Explore a tSNE visualization of all cells in the dataset, colored by cell types or expression of genes of interest

•                     Visualize a dataset’s sampling strategy to see how cells and nuclei were sampled across brain areas, cortical layer, and other dimensions

•                     Find a cell type of interest in one visualization and see its characteristics in a different visualization

 

Cell Registry: Two new datasets were also added to the BICCN Cell Registry this quarter, including:

• Transcriptomics: 10x Chromium 3’ sequencing v2 chemistry data in mouse (U19 Zeng)
• Connectivity: TRIO transsynaptic tracing in mouse (U01 Dong)

 

New data was added to existing datasets for an additional 196 brains, and 2.2 million cells and nuclei. Altogether, this brings the total count of BICCN data released to 1,133 brains and 8.5 million cells and nuclei.

 

BICCN Portal: 

• Access additional Atlas and Spatial Registration tools.
• Keep up to date on BICCN news and data releases on the new “Updates” page.