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On June 28 Lexogen together with Labroots hosted a webinar about application of QuantSeq 3’ mRNA-Seq Library Prep technology for the development of a research platform for the study of alternative polyadenylation.
The online talk was given by Dr. Jernej Ule, a group leader at the Francis Crick Institute, and Dr. Gregor Rot, who is a postdoctoral researcher at the Institute of Molecular Life Sciences University of Zurich.
ABSTRACT
Many RNA binding proteins (RBPs) regulate the selection of alternative polyA sites. To understand their regulatory principles, we developed expressRNA, a web platform encompassing computational tools for integration of the QuantSeq 3´ mRNA-Seq, iCLIP and RNA motif analyses. This reveals at nucleotide resolution the ‘RNA maps’, which demonstrate that RBPs bind to specific positions on pre-mRNAs to regulate the polyA sites. Our RNAmotifs2 software also identifies clustered sequence motifs that mediate the regulation of these sites. We used this approach to show that TDP-43, an RBP involved in several neurodegenerative diseases, binds close to the polyA site to repress, and further downstream to enhance their use. We conclude that TDP 43 directly regulates diverse types of pre-mRNA processing events according to common positional principles.
