Long non-coding RNA exploration for mesenchymal stem cell characterisation

Abstract Background The development of RNA sequencing (RNAseq) and the corresponding emergence public datasets have created new avenues transcriptional marker search. long non-coding RNAs (lncRNAs) constitute an emerging class transcripts with a potential for high tissue specificity function. Therefore, we tested biomarker lncRNAs on Mesenchymal Stem Cells (MSCs), complex type adult multipotent stem cells diverse origins, that is frequently used in clinics but which lacking extensive characterization. Results We developed dedicated bioinformatics pipeline purpose building cell-specific catalogue unannotated lncRNAs. performs ab initio transcript identification, pseudoalignment uses methodologies such as specific k-mer approach naive quantification expression numerous RNAseq data. next applied it MSCs, our was able to highlight novel cell specificity. Furthermore, original efficient approaches functional prediction, demonstrated each candidate represents one state MSCs biology. Conclusions showed can be employed harness markers. More specifically, results suggest different candidates actors biology propose promising directions future experimental investigations.