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How does gene expression in a particular study relate to disease mechanisms and gene regulatory networks?  New pathway search and visualization features help answer these biological questions!

In the study page, you can now search for pathways in addition to genes.  Select a pathway to see it, including a gene expression overlay for in your data of interest.
 

Background

Pathway diagrams are key to understanding the molecular processes that cause biological conditions.  These diagrams are directed graphs of nodes – e.g. genes, metabolites, pathways, and phenotypes – and the interactions among them.  Interactions include stimulation, inhibition, binding, catalysis, and more.  

Nodes can interact with other nodes individually or as sets.  Gene sets in these pathway diagrams generally represent gene families, like RAS GTPases, or complexes, like mTORC1.  These nodes and interactions are also often shown in cellular context, e.g. with interactions shown depicted in particular cellular compartments like the nucleus, cytosol, or extracellular...

Single Cell Portal now supports exploring multiome ATAC data!  Upload your 10x Genomics multiome data to SCP to explore how your sample's chromatin accessibility aligns with gene expression.  Simply add the ATAC fragment data from your analysis pipeline, then you can view ATAC data in genomic context, and interrogate it with SCP's filtering and other powerful exploration features.

This 30-second animation shows how to filter ATAC data in the genome browser.