Pathway Analysis for Cancer Spatial Transcriptomics Characterization
Entering edit mode
6 weeks ago
Flemming • 0

Hello all,

I am currently working on a spatial transcriptomics project on a cancer sample. I have gone through the workflow to cluster regions of my tissue and have obtained marker genes that are differentially expressed between clusters. I am interested in trying to classify my clusters by doing a pathway analysis on my marker genes, specifically I want to look for gene sets related to cancer attributes, such as hypoxia, necrosis, angiogenesis, etc. Does anyone have any suggestions on some good databases that I can search my genes against for this purpose? I am currently using clusterProfiler to do my pathway analyses.

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