DGE Analysis part 2 - GO term extravaganza
Intro
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DGE Analysis part 1
I ran PCA’s and got significant DEG lists for every pairwise comparison between the true control (control, day 0) and day 3 of every treatment (ocean acidification (OA), ocean warming (OW), hypoxia (DO), and control). PCA’s are below. Ellipses are 95% confidence areas (?). DEG’s are in my environment on...
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Starting tag-seq
I ran some code from Matt to start the tag-seq alignment process (pretty sure we’re aligning to a new transcriptome that members of the Roberts lab assembled). Here’s all the QC and trimming code. For some reason when I try to run commands with Matt’s data it says permission denied,...
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Knockdown pilot
Assay Anesthetized 4 mussels in 1 L of 50 g/L MgCl water (600 mL fresh, 400 saltwater). Numbered them with wire tags (8,9,10,12) Treatments (~10 am that day) 8: Given the scrambled negative control from IDT (100 uL, 1 mol). Injected in tip of foot. 9: Injected with 100 uL...
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