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If you want to see your RIN score you can check for errors in the error pane. It may be something like the "5S Region Anomaly Threshold" error. Then you can increase the 5S Region Anomaly Threshold from 0.5 to 1 and it should clear the error and give you a RIN score. But the RIN score will be unduly low due to the amount of small RNAs you have. So it is probably not worth the trouble.
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Phillip
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Plant RNA per se, will not necessarily give you poor RIN scores. We have a recent set of wheat RNAs submitted that all gave RINs > 9.5.
I think, other than actual degradation, the factor that will most lower the RIN score is a high concentration of small RNAs. That is typical of some isolation methods -- the Trizol (or other acid phenol) methods allow much higher yields of low molecular weight RNAs. For some applications that is actually good (well, obviously for small RNA projects). But for normal RNAseq experiments it can cause issues.
But, yes, it is not uncommon for plants to have a bunch of weird peaks (frequently plastid rRNA).
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Phillip
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by seqadmin
The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
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Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...-
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