PROTEOFORMER is a proteogenomic pipeline that delineates true in vivo proteoforms and generates a protein sequence search space for peptide to MS/MS matching. It can be combined with canonical protein databases or used independently for identification of novel translation products. The pipeline makes use of the recently developed next generation sequencing strategy termed ribosome profiling (RIBO-seq) that provides genome-wide information on protein synthesis in vivo. RIBO-seq is based on the deep sequencing of ribosome protected mRNA fragments.

Mar/05 11:00 - Mar/05 12:00
Jozef Schell seminar room Technologiepark 927 B-9052 Gent

N2N seminar: Construction of operational taxonomic units from environmental sequences - Robustness and Reproducibility

The demarcation of operational taxonomic units (OTUs) from complex sequence data sets is a key step in contemporary studies of microbial ecology. However, as biologically motivated ‘optimal’ OTU-binning algorithms remain elusive, many conceptually distinct approaches continue to be used. We set out systematically to test which of the methods provides more robust OTU delineations, and to find out to what extent different methods are in agreement.


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