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Differential expression analysis can be used to compare cell types. Here, we will compare glioma and oligodendrocyte cells to identify genes differentially regulated in glioma cells from the oligodendroglioma subtype. Glioma cells in oligodendroglioma are thought to originate from oligodendrocytes, thus directly comparing the two cell types will identify genes that distinguish them.
Filter cells
To analyze only the oligodendroglioma subtype, we can filter the samples.
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Identify differentially expressed genes
- Click the new Filtered counts data node
- Click Statistics > Differential analysis in the task menu
- Click GSA
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- Click
to apply the filter and generate a Filtered Feature list node
Exploring differentially expressed genes
To visualize the results, we can generate a hierarchical clustering heatmap.
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