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Erhard, Florian; Halenius, Anne; Zimmermann, Cosima; L'Hernault, Anne; Kowalewski, Daniel J.; Weekes, Michael P.; Stevanovic, Stefan; Zimmer, Ralf and Doelken, Lars (2018): Improved Ribo-seq enables identification of cryptic translation events. In: Nature Methods, Vol. 15, No. 5: pp. 363-366

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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 sORF s 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.

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