The effect of 5′ leader translation on translation of acORFs and identification of regulatory uORFs. (A) Correlation between fold change of ribosome density in the 5′ leaders and in acORFs and the change in acORF translation in mRNAs with translated 5′ leaders (orange bars) relative to all mRNA (grey): absolute (left) and relative (right) frequencies of genes. (B) Change in the position of the centre of ribosome density for each mRNA during the course of OGD. mRNAs with upregulation of inhibitory uORFs are likely to be found in the left bottom corner. Ribosome profiles of corresponding mRNAs were chosen for manual examination. (C) acORF regions translated in more than one reading frame are expected to have altered triplet periodicity (high density of footprints with 5′ ends at the third subcodon position). This analysis was used to detect overlapping uORFs.