Journal: Scientific Reports

Article Title: Extracellular vesicle-associated repetitive element DNAs as candidate osteosarcoma biomarkers

doi: 10.1038/s41598-020-77398-z

Figure Lengend Snippet: Over-representation of repetitive elements in OS compared to control EV preparations in a validation cohort. ( a ) Violin plots representing relative abundance of HSATI , HSATII , L1P1 and Charlie 3 by RT-qPCR of control (n = 6–11) and OS (n = 7–8) serum EV preparations. RT-qPCR was normalized against C. elegans external spike-in miR-39–3p RNA. White lines represent median. ( b ) Violin plots representing relative abundance of HSATI , HSATII , L1P1 and Charlie 3 DNA by qPCR, in the absence of reverse transcription, in control (n = 12) and OS (n = 8) serum EV preparations. qPCR was performed on equal proportions of nucleic acid extracted from 200 ul of OS and control serum. White lines represent median. ( c ) Diagnostic value of HSATI , HSATII , L1P1 and Charlie 3 DNA sequences in serum OS preparations. ROC curves were generated using data in ( b ). Groups were compared using two ‐ tailed, unpaired, Mann Whitney U test; * p < 0.05; ** p < 0.01; *** p < 0.001.

Article Snippet: 5′-RNA adapters and 3′-DNA adapters (SeqMatic, personal communication) were directly ligated to nucleic acid substrates, followed by PCR amplification.

Techniques: Quantitative RT-PCR, Diagnostic Assay, Generated, Two Tailed Test, MANN-WHITNEY