PXD057269 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Targeted mass spectrometry of endogenous LINE-1 proteins and ORF2p interactomics |
Description | Expression and activity of LINE-1 (L1) retrotransposons is known to occur in numerous cell-types and is implicated in pathobiological contexts such as aging-related inflammation, autoimmunity, and in cancers. L1s encode two proteins that are translated from bicistronic transcripts. The translation product of ORF1 (ORF1p) has been robustly detected by immunoassays and shotgun mass spectrometry (MS). Yet, more sensitive detection methods would enhance the use of ORF1p as a clinical biomarker. In contrast, until now, no direct evidence of endogenous L1 ORF2 translation to protein (ORF2p) has been shown. Instead, assays for ORF2p have been limited to ectopic protein over-expression contexts and to indirect detection of endogenous ORF2p enzymatic activity, such as by the sequencing of de novo genomic insertions. Here we present targeted mass spectrometry assays, selected and parallel reaction monitoring (SRM and PRM, respectively) to detect and quantify L1 ORF1p and ORF2p in endogenous expression contexts. We were able to quantify ORF1p and ORF2p present in our samples down to a range in the low attomoles. Confident in our ability to affinity enrich ORF2p, we describe an interactome associated with endogenous ORF2-containing macromolecular assemblies. |
HostingRepository | PRIDE |
AnnounceDate | 2025-02-06 |
AnnouncementXML | Submission_2025-02-06_08:37:44.491.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Mathias Nielsen |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | methylthiolated residue; monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Orbitrap Exploris 480; TSQ Altis |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2024-10-28 17:42:40 | ID requested | |
⏵ 1 | 2025-02-06 08:37:44 | announced | |
Publication List
Keyword List
submitter keyword: SRM, cancer,Targeted proteomics, PRM, mass spectrometry, LINE-1, retrotransposon |
Contact List
John LaCava |
contact affiliation | The Rockefeller University |
contact email | jlacava@rockefeller.edu |
lab head | |
Mathias Nielsen |
contact affiliation | Rockefeller University |
contact email | mnielsen@rockefeller.edu |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD057269
- Label: PRIDE project
- Name: Targeted mass spectrometry of endogenous LINE-1 proteins and ORF2p interactomics