PXD025235

PXD025235 is an original dataset announced via ProteomeXchange.

Title	Structured elements drive circular RNA translation and expand the human proteome part2
Description	The human genome encodes tens of thousands circular RNAs (circRNAs) whose levels correlate with many disease states. While studies have focused on the non-coding functions of circRNAs, emerging evidence suggests that a handful of circRNAs encode proteins. Translation canonically starts by recognition of mRNA 5’cap and scanning to the start codon; how circRNA translation initiates remains unclear. Here, we developed a high-throughput screen to systematically identify and quantify RNA sequences that can direct circRNA translation. We identify and validate over 17,000 circRNA internal ribosome entry sites (IRES) and reveal that 18S rRNA complementarity and a structured RNA element on the IRES are important for facilitating circRNA cap-independent translation. With genomic and peptidomic analyses of the IRES, we identified nearly 1,000 putative endogenous protein-coding circRNAs and hundreds of translational units encoded by these circRNAs. We further characterized circFGFR1p, a protein encoded by circFGFR1, functions as a negative regulator of FGFR1 to suppress cell growth under stress conditions. The circRNA proteome may be important links among circRNA, biological control, and disease.
HostingRepository	PRIDE
AnnounceDate	2024-10-07
AnnouncementXML	Submission_2024-10-07_13:39:03.034.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD025235
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Chun-Kan Chen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	6x(13)C,1x(15)N labeled L-leucine; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-04-06 19:48:14	ID requested
⏵ 1	2024-10-07 13:39:03	announced

10.6019/PXD025235;

submitter keyword: LC-MS,circular RNA, human

Howard Y. Chang
contact affiliation	Stanford School of Medicine
contact email	howchang@stanford.edu
lab head
Chun-Kan Chen
contact affiliation	Stanford University
contact email	chunkanc@stanford.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD025235
     1. Label: PRIDE project
     2. Name: Structured elements drive circular RNA translation and expand the human proteome part2