PXD016328 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | LC-MS/MS analysis of human cellular tRNA |
Description | The field of epitranscriptomics is growing in importance, with chemical modification of RNA being associated with a wide variety of biological phenomena. Mass spectrometry (MS) enables the identification of modified RNA residues within their sequence contexts, by using analogous approaches to shotgun proteomics. We have developed a free and open-source database search engine for RNA MS data, called NucleicAcidSearchEngine (NASE), as part of the OpenMS software framework. NASE allows the reliable identification of (modified) RNA sequences from LC-MS/MS data in a high-throughput fashion. For this validation dataset, we generated samples of human total tRNA from a cellular extract - a complex mixture of highly modified RNAs. The samples were RNase-treated prior to nanoflow LC-MS/MS analysis. |
HostingRepository | PRIDE |
AnnounceDate | 2020-03-31 |
AnnouncementXML | Submission_2020-03-31_04:49:31.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Hendrik Weisser |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2019-11-18 09:02:31 | ID requested | |
⏵ 1 | 2020-03-31 04:49:32 | announced | |
2 | 2024-10-22 05:01:29 | announced | 2024-10-22: Updated project metadata. |
Publication List
Wein S, Andrews B, Sachsenberg T, Santos-Rosa H, Kohlbacher O, Kouzarides T, Garcia BA, Weisser H, A computational platform for high-throughput analysis of RNA sequences and modifications by mass spectrometry. Nat Commun, 11(1):926(2020) [pubmed] |
Keyword List
submitter keyword: RNA, tRNA, epitranscriptomics |
Contact List
Byron Andrews |
contact affiliation | STORM Therapeutics Limited, Cambridge, United Kingdom |
contact email | byron.andrews@stormtherapeutics.com |
lab head | |
Hendrik Weisser |
contact affiliation | STORM Therapeutics Limited |
contact email | hendrik.weisser@stormtherapeutics.com |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/03/PXD016328 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD016328
- Label: PRIDE project
- Name: LC-MS/MS analysis of human cellular tRNA