Multiome Islet Genomics User Guide
Multiome Islet Genomics User Guide
Single Cell Browser
Use this ShinyCell-based browser to visualize gene expression and donor metadata for all 174,819 single nuclei.
Key Features
- Tabs:
- CellInfo vs GeneExpr
- CellInfo vs CellInfo
- GeneExpr vs GeneExpr
- Visualize per-barcode metadata and normalized gene expression projected onto the UMAP.
- Gene Coexpression: Overlap expression for two genes.
- Summarized Metadata and Gene Expression: Customize visualizations with violin plots, box plots, and proportion plots.
- Bubbleplot / Heatmap: Visualize up to 50 genes across groups of cells.
Differential Expression Browser and Differential Accessible cRE Browser
Explore differential gene expression and differential accessible cREs by phenotype associations across major cell types.
Key Features
- Volcano Plot: Displays meta-analysis effects and FDR-corrected significance.
- Interactive Table: Visualize and download association test data.
- Download Results: Only significant features are downloaded if specified.
Motif Browser
Use this browser to display differentially accessible TF motif results for phenotype associations by cell type.
Links Browser
Developed by the Wang lab at WashU, this browser can display ATAC signals, cRE-gene links, and more. See their documentation for additional features.
Session Files
We provide .json session files for two types of browser sessions:
- ATAC signal from all cell types
- cRE-gene links for all six major cell types
Download them via Dropbox.