Experimental preparation of #RNAseq samples
This winter, the Master students preformed the experimental part of our RNA-seq. This blog is a bit late, so they have in the meantime started the bioinformatics analysis, which will be reported in a future blogpost (hopefully less late than this one).
So, four conditions to study gene expression:
Growth of bacteria in: liquid medium with succinate; liquid medium with toluene; sand with succinate; sand with toluene.
And after extraction the RNA looks good:
QC of RNA, 4 conditions with 4 replicates each
Quality control of the rRNA depletion process (Bioanalyzer report): no rRNA, no degradation.
Quantification shows a very good yield.
Quality Control (Bioanalyzer): near optimal size distribution; similar profiles for all samples.
So all these samples were sent to our Genomic Technologies Facility, and the single end reads found their way to our Vital-IT cluster.
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