Category Archives: ribosome profiling

Protein translation from uORFs: roles in stress

The current view of an mRNA is that of a central coding sequence (CDS) flanked by 5′ and 3′ untranslated regions (UTRs). But often UTRs contain open reading frames which, as revealed by ribosome profiling, can also be translated. The … Continue reading

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Filed under ribosome profiling, yeast

Thousands of small ORFs are translated, what are they doing?

The high throughput sequencing of ribosome-protected RNA fragments, or ribosome profiling (Ribo-Seq), has uncovered the translation of thousands of novel small ORFs (< 100 amino acids) that were not annotated. These ORFs had remained hidden from annotation pipelines because of … Continue reading

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Filed under de novo gene evolution, proteomics, ribosome profiling, science

Using ribosome profiling to improve our understanding of gene regulation

To measure changes in the expression of the genes we normally compare mRNA abundances using high throughput RNA sequencing data (RNA-Seq), as a proxy for the changes in the encoded proteins. However, it is well known that the correlation between … Continue reading

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Filed under differential gene expression, proteomics, ribosome profiling, transcriptomics, yeast