Today I spoke with Steven about what the results are for the 2015 C. gigas seed paper. I made a new annotated table for the 69 differentially abundant (though not significantly) proteins. Edits to paper.
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Bairdi RNA extractions- other methods to try; Plan for Week
Between trying to add some edits and clean things up for the 2015 Oysterseed project paper, I’ve been reading protocols for other RNA extraction kits. Zymo Quick-DNA/RNA Mircoprep Plus Kit, Zymo Directzol RNA MiniPrep… Details in post
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Annotated Protein List from MS Stats with set thresholds... in progress
Yesterday and today I got some more 2015 DIA paper-related tasks done, including making a table that includes the proteins detected above a log2FC of 3.00 and below -3.00, and one that was annotated…
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RNeasy Kit Extraction with 12 samples - RNA in 1/12
Today I did the RNeasy Plus Micro Kit protocol (without the vacuum) on 12 samples (taken from the 24 that I did last time). Of the 12, only 1 had detectable RNA. The rest were all “Out of Range: TOO LOW”. Details in post below.
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Re-do MS Stats; DIA 2015 Oyster Updates
Today I got some more input from Emma regarding the reports to export from Skyline to analyze. I exported a new MS Stats report (the built-in one from Skyline) and also made the bioreplicates in the file accurate (details in post). Additionally, I exported a new report that includes information...
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