Using the sORFs.Org Database. Issue 1 (28th November 2018)

• Record Type: Journal Article
• Authors: Olexiouk, Volodimir; Menschaert, Gerben
• Editors: Baxevanis, Andreas D.; Petsko, Gregory A.; Stein, Lincoln D.; Stormo, Gary D.
• Is Part Of: Current protocols in bioinformatics. Volume 65:Issue 1(2019)
• Page Start: n/a
• Page End: n/a
• Publication Date: 2018-11-28
• Subjects: micropeptide -- ribosome profiling -- SEP -- small open reading frame -- sORF; Bioinformatics -- Laboratory manuals; Nucleotide sequence -- Laboratory manuals; Amino acid sequence -- Laboratory manuals; Base Sequence; Amino Acid Sequence; Computational Biology -- methods; Databases, Genetic; Proteins -- analysis; Sequence Analysis -- methods; Sequence Homology; Amino acid sequence; Bioinformatics; Nucleotide sequence; Laboratory Manuals; Laboratory manuals; 570.285
• DOI: 10.1002/cpbi.68
• Languages: English
• ISSNs: 1934-3396

Abstract

Abstract: Ribosome profiling involves sequencing of approximately 30‐base‐long stretches of ribosome‐protected mRNA. The technique enables genome‐wide mapping of RNA undergoing active translation. Numerous small open reading frames have been identified by using ribosome profiling, leading researchers to question the assumed non‐functional character of sORFs and to the identification of various important sORF translation products. sORFs.org ( https://www.sorfs.org ) is a public repository of small open reading frames identified by ribosome profiling in a database of over 3 million sORFs across 78 datasets from six species. sORFs.org is a multi‐omics endeavor providing tools and metrics to assess the coding potential of the delineated sORFs. A pipeline is also in place to systematically rescan public mass spectrometry datasets to acquire new experimental evidence for sORF‐encoded polypeptides. sORFs.org provides two distinct query interfaces, export functionality, and various visualization tools to enable inspection of the available information. © 2018 by John Wiley & Sons, Inc.