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Identify conserved and variable genes across the multi species BICCN MOp dataset

amahurkar edited this page Apr 17, 2020 · 3 revisions

Within-species

  1. Find the profile with the specific single-cell dataset
  2. Select a consensus cell type (e.g. chandelier cells, ChC) and identify marker genes for that cell type across species. (How are marker genes identified?)
  3. Intersect lists of marker genes across species and identify conserved (need to define what conserved means) and species-specific markers (Need a little more clarification here)
  4. What next?

Cross-species

  1. Select a consensus type in all species and calculate differential expression
  2. Sort DE genes by fold-change
  3. Export list of DE genes for GO analysis or gene annotation