Let’s get GOing on Enrichment

Today’s Notebook

Today was filled with epic explorations of differential expression and gene ontology enrichment of the sea star transcriptome.  There are a lot of cool things in there.  In the transcriptome in general I was able to find a ton of antioxidant genes (superoxide dismutase, catalase, and peroxidase) which bode well for my future biochemical assays.  But the real excitement came when we got to examining what was different between control and infected stars.  Short story: A LOT, like 3000 genes, which is ten times what we normally see in our corals.  WOW.  We then took these genes that were significant and exported their spIDs to DAVID so we could look at what biological process GO terms were significantly enriched: a lot of immune genes.  Most of the data can be found in my notebook, including figures.  Here are a few juicy ones though.  Yay bioinformatics!

Treemap of our GO terms which are associated with differentially expressed genes (from REVIGO)

Treemap of our GO terms which are associated with differentially expressed genes (from REVIGO)

Differential expression plot from DESeq2

Differential expression plot from DESeq2

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