Seminar: Analysis of Short Read Libraries

By David Langenberger, University of Leipzig, Germany. At 14:00, University of Copenhagen, LIFE, Grønnegårdsvej 7 (bldg. 1-04), 1st floor, Library/M106

Registration is not necessary. Refreshments will be served.


Current methods for high throughput sequencing (HTS) for the first time offer the opportunity to investigate the entire transcriptome in an essentially unbiased way. In the presentation I will focus on the identification and analysis of small RNA fragments. After mapping RNAseq data to a reference genomes, most of the known small non‑coding RNAs undergo maturation (/degradation?) processes that lead to the production of shorter RNAs (as already known for microRNAs). We recently showed that the mappings of these short reads form specific patterns for different classes of non‑coding RNA. These read patterns seem to reflect the processing and thus are specific for the RNA transcripts of which they are derived from. We use these patterns to classify known and identify new non‑coding RNAs using a machine learning approach, as well as a newly developed alignment method for pattern comparison.