Improved Ribo-seq enables identification of cryptic translation events.
Accepted version
Peer-reviewed
Repository URI
Repository DOI
Change log
Authors
Erhard, Florian https://orcid.org/0000-0002-3574-6983
Halenius, Anne
Zimmermann, Cosima
L'Hernault, Anne
Kowalewski, Daniel J
Abstract
Ribosome profiling has been used to predict thousands of short open reading frames (sORFs) in eukaryotic cells, but it suffers from substantial levels of noise. PRICE (https://github.com/erhard-lab/price) is a computational method that models experimental noise to enable researchers to accurately resolve overlapping sORFs and noncanonical translation initiation. We experimentally validated translation using major histocompatibility complex class I (MHC I) peptidomics and observed that sORF-derived peptides efficiently enter the MHC I presentation pathway and thus constitute a substantial fraction of the antigen repertoire.
Description
Keywords
Computational Biology, Genes, MHC Class I, Models, Biological, Peptides, Protein Biosynthesis, Protein Footprinting, Proteomics, Ribosomes, Software
Journal Title
Nat Methods
Conference Name
Journal ISSN
1548-7091
1548-7105
1548-7105
Volume Title
15
Publisher
Springer Science and Business Media LLC
Publisher DOI
Sponsorship
Wellcome Trust (108070/Z/15/Z)
Medical Research Council (G1002523)
Medical Research Council (G1002523)