After assembling some reads using Velvet-Oases, I noticed that many occasions, the 5' of a CDS would be missing. Sometimes, its the 3' end that is missing but mostly the 5'. Is this due to the degradation of mRNA before/during the sequencing process?
-
-
We need to know some details about library construction to answer with any certainty. But the issue you are most likely seeing is that the library is the result of the poly A-based isolation of mRNA from total RNA. Because the poly A tail is at the 3' end of the mRNA, any degradation of the RNA sample will cause the 5' end of the message to be lost.
--
Phillip
-
NGS has revolutionized clinical microbiology by offering new ways to identify and surveil pathogens without prior knowledge of the target. One popular approach is 16S rRNA and ITS amplicon sequencing, which targets specific microbial markers. But studies are increasingly incorporating shotgun metagenomics, a technique that sequences all DNA from a sample without targeting specific microbial markers. This approach allows more detailed taxonomic classification, detection...Yesterday, 06:46 AM -
Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?
Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating...10-14-2026, 09:55 AM
Comment