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PXD022679-1

PXD022679 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleOne-shot analysis of translated mammalian lncRNAs with AHARIBO
DescriptionA vast portion of the mammalian genome is transcribed as long non-coding RNAs (lncRNAs) acting in the cytoplasm with largely unknown functions. Surprisingly, lncRNAs have been shown to interact with ribosomes, encode uncharacterized proteins, or act as ribosome sponges. These functions still remain mostly undetected and understudied owing to the lack of efficient tools for genome-wide simultaneous identification of ribosome-associated lncRNAs and peptide-producing lncRNAs. Here we present AHARIBO, a method for the detection of lncRNAs either untranslated, but associated with ribosomes, or encoding small peptides. Using AHARIBO in mouse embryonic stem cells during neuronal differentiation, we isolated ribosome-protected RNA fragments, translated RNAs and corresponding de novo synthesized polypeptides. Besides identifying mRNAs under active translation and associated ribosomes, we found and distinguished lncRNAs acting as ribosome sponges or encoding micropeptides, laying the ground for a better functional understanding of hundreds lncRNAs.
HostingRepositoryPRIDE
AnnounceDate2024-10-07
AnnouncementXMLSubmission_2024-10-07_13:37:02.085.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD022679
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterRomina Belli
SpeciesList scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList6x(13)C; 6x(13)C; acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
InstrumentOrbitrap Fusion
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-11-23 09:36:12ID requested
12024-10-07 13:37:02announced
Publication List
10.7554/elife.59303;
10.6019/PXD022679;
Keyword List
submitter keyword: Ribosome, proteogenomics, proteomics, RIBO-seq,LncRNA, RNA, translatome, translation
Contact List
Massimiliano Clamer
contact affiliationIMMAGINA BioTechnology S.r.l, Via Sommarive 18, Povo (Italy)
contact emailmclamer@immaginabiotech.com
lab head
Romina Belli
contact affiliationUniversity of Trento
contact emailromina.belli@unitn.it
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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