Exosomal RNA Sequencing

Exosome is a type of extracellular vesicles with an average diameter of 100 nanometer. It is commonly found in biological fluids, including peripheral blood, urine, saliva, ascites, aminiotic fluids, etc. It could be generated by a wide variety of cells and contains complex contents including lipids, protein and nuclear acids. Non-coding RNA (miRNA, circRNA, lncRNA) in exosomes is attracting increasing attention on its regulatory effects on biological behavior and potential applications in medical arena. Recently, it has been reported that some exosomal RNAs in peripheral blood can be used as key molecular markers in disease detection. Exosomal RNA sequencing enables multiplex testing all markers simultaneously.

LncRNA prediction

LncRNA prediction consists basic screening (basing on length, exons, expression level) and coding potential screening. Coding potential screening is processed in four commonly employed methods: CPC analysis, CNCI analysis, CPAT analysis and pfam protein domain analysis. Venn diagram on non-coding transcripts sets shows overlaps of the four sets giving visual information in lncRNA selection.

Hierarchical clustering of differentially expressed lncRNA

LncRNAs with same or similar expression patterns across different experimental conditions are clustered together by Hierarchical clustering analysis. The lncRNAs in the same clusters are more likely to be functionally relevant to each other, i.e. involved in same or similar pathways.

miRNA base editing analysis

miRNA could be edited after transcription, resulting in change in seed sequence. As a consequence, its target gene will change. Base edited miRNAs are identified by isomiRID.