Assessment of results produced by collaborator
Prof Jacobs worked with an overseas collaborator to analyze their microarray-based gene expression data. Further assistance was however needed particularly with data interpretation.
After careful assessment of the fairly comprehensive results provided by the collaborators (all done in R), which included differential expression testing between different cell types (microglia, astrocytes, neurons) and treatments (H37Rv, control, BCG) and funtional enrichment analysis, I noticed a batch effect in the data. I will therefore have to redo all analyses after batch correction using Combat.
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