Callithrix jacchus primate cell atlas (CjPCA):

• Switch dataset:

  Select 1K, MIC, OPC, OLI, AST, VAS, NEU dataset from the left sidebar, wait for the UMAP(2D) tab to load before navigating to other tabs

• Explore UMAP (3D):

  Drag to rotate and zoom, and toggle clusters by clicking the legend

• Feature expression pattern:

  Hit Refresh Gene Selection button to prompt top marker selection for each dataset

  Use group.by & split.by in the left sidebar to update results in the relevant tabs

  Check VlnPlot.points or FeaturePlot.sort boxes in the left sidebar to show or sort nulcei by feature expression level. Note:Y-axis is ln(gene expression) transformed and ◆ indicate median in VlnPlot

  • DotPlot:

    Enter genes in the left sidebar, DotPlots will appear in the ✱ DotPlot (local) + group.by & ✱ DotPlot (global) tabs. Note: Only 50 nuclei per L2 subtype are shown in (global)

  • FeaturePlot & VlnPlot:

    Enter features in the left sidebar to see them in the ✦ FeaturePlot & ✦ VlnPlot + group.by tabs

• Gene markers and modules:

  Select multiple genes from the table in the GeneSet tab, then click Submit for ✱ DotPlot button to see results

• Expression table:

  Use average.by to update the table in the ExpMx + average.by tab and download csv

bioRxiv preprint:

Microenvironment Impacts the Molecular Architecture and Interactivity of Resident Cells in Marmoset Brain

Nature Communications:

Transcriptomic architecture of nuclei in the marmoset CNS

Jing-Ping Lin, Hannah M. Kelly, Yeajin Song, Riki Kawaguchi, Daniel H. Geschwind, Steven Jacobson & Daniel S. Reich

Translational Neuroradiology Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USA