Rp3: Ribosome profiling-assisted proteogenomics improves coverage and confidence during microprotein discovery.

ABSTRACT: There has been a dramatic increase in the identification of non-canonical translation and a significant expansion of the protein-coding genome. Among the strategies used to identify unannotated small Open Reading Frames (smORFs) that encode microproteins, Ribosome profiling (Ribo-Seq) is the gold standard for the annotation of novel coding sequences by reporting on smORF translation. In Ribo-Seq, ribosome-protected footprints (RPFs) that map to multiple genomic sites are removed since they cannot be unambiguously assigned to a specific genomic location. Furthermore, RPFs necessarily result in short (25-34 nucleotides) reads, increasing the chance of multi-mapping alignments, such that smORFs residing in these regions cannot be identified by Ribo-Seq. Moreover, it has been challenging to id

SUBMITTER: Vieira de Souza E 

PROVIDER: S-EPMC11316118 | biostudies-literature | 2024 Aug

REPOSITORIES: biostudies-literature