I extracted RNA from the same tubes that I worked with a lot the past couple of weeks on the bioanalyzer and Nanodrop and qubit because there ended up being not much left. RNA was in all samples. Details of extraction and next steps in post.
[Read More]
GSS 2019 Preparations - Differential Expression between infected and uninfected
Today, I continued to prepare a presentation for GSS 2019 (this Thursday - my talk is at 1:30pm). I met with Steven and discussed a plan for results, and he shared with me the analyses he’s done during the past couple of days. Details of results and what I’ve done...
[Read More]
Still no clear RNA bands on Bioanalyzer; Also working to get diff. exp. for GSS
Today I went through the DNase-free plan with 4 of the extracted crab samples. There was initially quite a bit of DNA, then after I used the Turbo DNA-free Kit, there was significantly less DNA. The Bioanalyzer still didn’t look super great… detail in post. Also, I’m working through kallisto...
[Read More]
DNA-free, Qubit, and Bioanalyzer Plan; Kallisto work
Today we came up with a plan to address the issues that came up with the weird bioanalyzer results from yesterday (GitHub Issue #792). I also got some help with kallisto and am working on getting some analysis done for looking at differential expression (hopefully have some new results for...
[Read More]
Bairdi RNA - Bioanalyzer and Nanodrop, Begin analyses for GSS - Kallisto
Today I tried doing several things, none of them super successfully. First, I tried using Kallisto to get some quick differential expression results from the new bairdi RNA-seq data. It didn’t work, but I just need to look a little more into it. I didn’t spend too much time on...
[Read More]