Skip to Main content Skip to Navigation
Journal articles

MetamORF: a repository of unique short open reading frames identified by both experimental and computational approaches for gene and metagene analyses

Abstract : The development of high-throughput technologies revealed the existence of noncanonical short open reading frames (sORFs) on most eukaryotic ribonucleic acids. They are ubiquitous genetic elements conserved across species and suspected to be involved in numerous cellular processes. MetamORF (https://metamorf.hb.univ-amu.fr/) aims to provide a repository of unique sORFs identified in the human and mouse genomes with both experimental and computational approaches. By gathering publicly available sORF data, normalizing them and summarizing redundant information, we were able to identify a total of 1 162 675 unique sORFs. Despite the usual characterization of ORFs as short, upstream or downstream, there is currently no clear consensus regarding the definition of these categories. Thus, the data have been reprocessed using a normalized nomenclature. MetamORF enables new analyses at locus, gene, transcript and ORF levels, which should offer the possibility to address new questions regarding sORF functions in the future. The repository is available through an user-friendly web interface, allowing easy browsing, visualization, filtering over multiple criteria and export possibilities. sORFs can be searched starting from a gene, a transcript and an ORF ID, looking in a genome area or browsing the whole repository for a species. The database content has also been made available through track hubs at UCSC Genome Browser. Finally, we demonstrated
Complete list of metadata

https://hal-amu.archives-ouvertes.fr/hal-03268485
Contributor : Lionel Spinelli Connect in order to contact the contributor
Submitted on : Wednesday, June 23, 2021 - 11:21:26 AM
Last modification on : Tuesday, October 19, 2021 - 10:59:27 PM
Long-term archiving on: : Friday, September 24, 2021 - 6:26:32 PM

File

baab032.pdf
Publisher files allowed on an open archive

Licence


Distributed under a Creative Commons Attribution 4.0 International License

Identifiers

Collections

Citation

Sebastien Choteau, Audrey Wagner, Philippe Pierre, Lionel Spinelli, Christine Brun. MetamORF: a repository of unique short open reading frames identified by both experimental and computational approaches for gene and metagene analyses. Database - The journal of Biological Databases and Curation, Oxford University Press, 2021, 2021, ⟨10.1093/database/baab032⟩. ⟨hal-03268485⟩

Share

Metrics

Record views

86

Files downloads

88